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Sample records for visualization tool withfunctional

  1. TreeQ-VISTA: An Interactive Tree Visualization Tool withFunctional Annotation Query Capabilities

    Energy Technology Data Exchange (ETDEWEB)

    Gu, Shengyin; Anderson, Iain; Kunin, Victor; Cipriano, Michael; Minovitsky, Simon; Weber, Gunther; Amenta, Nina; Hamann, Bernd; Dubchak,Inna

    2007-05-07

    Summary: We describe a general multiplatform exploratorytool called TreeQ-Vista, designed for presenting functional annotationsin a phylogenetic context. Traits, such as phenotypic and genomicproperties, are interactively queried from a relational database with auser-friendly interface which provides a set of tools for users with orwithout SQL knowledge. The query results are projected onto aphylogenetic tree and can be displayed in multiple color groups. A richset of browsing, grouping and query tools are provided to facilitatetrait exploration, comparison and analysis.Availability: The program,detailed tutorial and examples are available online athttp://genome-test.lbl.gov/vista/TreeQVista.

  2. Big Data Visualization Tools

    OpenAIRE

    Bikakis, Nikos

    2018-01-01

    Data visualization is the presentation of data in a pictorial or graphical format, and a data visualization tool is the software that generates this presentation. Data visualization provides users with intuitive means to interactively explore and analyze data, enabling them to effectively identify interesting patterns, infer correlations and causalities, and supports sense-making activities.

  3. CMS tracker visualization tools

    CERN Document Server

    Zito, G; Osborne, I; Regano, A

    2005-01-01

    This document will review the design considerations, implementations and performance of the CMS Tracker Visualization tools. In view of the great complexity of this sub-detector (more than 50 millions channels organized in 16540 modules each one of these being a complete detector), the standard CMS visualization tools (IGUANA and IGUANACMS) that provide basic 3D capabilities and integration within CMS framework, respectively, have been complemented with additional 2D graphics objects. Based on the experience acquired using this software to debug and understand both hardware and software during the construction phase, we propose possible future improvements to cope with online monitoring and event analysis during data taking.

  4. CMS tracker visualization tools

    Energy Technology Data Exchange (ETDEWEB)

    Mennea, M.S. [Dipartimento Interateneo di Fisica ' Michelangelo Merlin' e INFN sezione di Bari, Via Amendola 173 - 70126 Bari (Italy); Osborne, I. [Northeastern University, 360 Huntington Avenue, Boston, MA 02115 (United States); Regano, A. [Dipartimento Interateneo di Fisica ' Michelangelo Merlin' e INFN sezione di Bari, Via Amendola 173 - 70126 Bari (Italy); Zito, G. [Dipartimento Interateneo di Fisica ' Michelangelo Merlin' e INFN sezione di Bari, Via Amendola 173 - 70126 Bari (Italy)]. E-mail: giuseppe.zito@ba.infn.it

    2005-08-21

    This document will review the design considerations, implementations and performance of the CMS Tracker Visualization tools. In view of the great complexity of this sub-detector (more than 50 millions channels organized in 16540 modules each one of these being a complete detector), the standard CMS visualization tools (IGUANA and IGUANACMS) that provide basic 3D capabilities and integration within CMS framework, respectively, have been complemented with additional 2D graphics objects. Based on the experience acquired using this software to debug and understand both hardware and software during the construction phase, we propose possible future improvements to cope with online monitoring and event analysis during data taking.

  5. CMS tracker visualization tools

    International Nuclear Information System (INIS)

    Mennea, M.S.; Osborne, I.; Regano, A.; Zito, G.

    2005-01-01

    This document will review the design considerations, implementations and performance of the CMS Tracker Visualization tools. In view of the great complexity of this sub-detector (more than 50 millions channels organized in 16540 modules each one of these being a complete detector), the standard CMS visualization tools (IGUANA and IGUANACMS) that provide basic 3D capabilities and integration within CMS framework, respectively, have been complemented with additional 2D graphics objects. Based on the experience acquired using this software to debug and understand both hardware and software during the construction phase, we propose possible future improvements to cope with online monitoring and event analysis during data taking

  6. Python tools for Visual Studio

    CERN Document Server

    Wang, Cathy

    2014-01-01

    This is a hands-on guide that provides exemplary coverage of all the features and concepts related to PTVS.The book is intended for developers who are aiming to enhance their productivity in Python projects with automation tools that Visual Studio provides for the .Net community. Some basic knowledge of Python programming is essential.

  7. Methods and tools for big data visualization

    OpenAIRE

    Zubova, Jelena; Kurasova, Olga

    2015-01-01

    In this paper, methods and tools for big data visualization have been investigated. Challenges faced by the big data analysis and visualization have been identified. Technologies for big data analysis have been discussed. A review of methods and tools for big data visualization has been done. Functionalities of the tools have been demonstrated by examples in order to highlight their advantages and disadvantages.

  8. Visual intelligence Microsoft tools and techniques for visualizing data

    CERN Document Server

    Stacey, Mark; Jorgensen, Adam

    2013-01-01

    Go beyond design concepts and learn to build state-of-the-art visualizations The visualization experts at Microsoft's Pragmatic Works have created a full-color, step-by-step guide to building specific types of visualizations. The book thoroughly covers the Microsoft toolset for data analysis and visualization, including Excel, and explores best practices for choosing a data visualization design, selecting tools from the Microsoft stack, and building a dynamic data visualization from start to finish. You'll examine different types of visualizations, their strengths and weaknesses, a

  9. Survey of Network Visualization Tools

    Science.gov (United States)

    2007-12-01

    programming language such as Java, C #, Delphi and Visual basic. AlgoCOMs Network also supports Visual Basic for Applications ( VBA ). Hardware: Users...AlgoCOMs Network also supports Visual Basic for Applications ( VBA ). Hardware: Users: Availability: • Commercially Available Cost $101...Application Monitoring - Constantly watch the health of your mission-critical applications: MS SQL , MS Exchange, MS IIS, Active Directory. Event

  10. Visualization Tools for Teaching Computer Security

    Science.gov (United States)

    Yuan, Xiaohong; Vega, Percy; Qadah, Yaseen; Archer, Ricky; Yu, Huiming; Xu, Jinsheng

    2010-01-01

    Using animated visualization tools has been an important teaching approach in computer science education. We have developed three visualization and animation tools that demonstrate various information security concepts and actively engage learners. The information security concepts illustrated include: packet sniffer and related computer network…

  11. Integrated Data Visualization and Virtual Reality Tool

    Science.gov (United States)

    Dryer, David A.

    1998-01-01

    The Integrated Data Visualization and Virtual Reality Tool (IDVVRT) Phase II effort was for the design and development of an innovative Data Visualization Environment Tool (DVET) for NASA engineers and scientists, enabling them to visualize complex multidimensional and multivariate data in a virtual environment. The objectives of the project were to: (1) demonstrate the transfer and manipulation of standard engineering data in a virtual world; (2) demonstrate the effects of design and changes using finite element analysis tools; and (3) determine the training and engineering design and analysis effectiveness of the visualization system.

  12. Visual Arts as a Tool for Phenomenology

    Directory of Open Access Journals (Sweden)

    Anna S. CohenMiller

    2017-12-01

    Full Text Available In this article I explain the process and benefits of using visual arts as a tool within a transcendental phenomenological study. I present and discuss drawings created and described by four participants over the course of twelve interviews. Findings suggest the utility of visual arts methods within the phenomenological toolset to encourage participant voice through easing communication and facilitating understanding.

  13. An interactive visualization tool for mobile objects

    Science.gov (United States)

    Kobayashi, Tetsuo

    Recent advancements in mobile devices---such as Global Positioning System (GPS), cellular phones, car navigation system, and radio-frequency identification (RFID)---have greatly influenced the nature and volume of data about individual-based movement in space and time. Due to the prevalence of mobile devices, vast amounts of mobile objects data are being produced and stored in databases, overwhelming the capacity of traditional spatial analytical methods. There is a growing need for discovering unexpected patterns, trends, and relationships that are hidden in the massive mobile objects data. Geographic visualization (GVis) and knowledge discovery in databases (KDD) are two major research fields that are associated with knowledge discovery and construction. Their major research challenges are the integration of GVis and KDD, enhancing the ability to handle large volume mobile objects data, and high interactivity between the computer and users of GVis and KDD tools. This dissertation proposes a visualization toolkit to enable highly interactive visual data exploration for mobile objects datasets. Vector algebraic representation and online analytical processing (OLAP) are utilized for managing and querying the mobile object data to accomplish high interactivity of the visualization tool. In addition, reconstructing trajectories at user-defined levels of temporal granularity with time aggregation methods allows exploration of the individual objects at different levels of movement generality. At a given level of generality, individual paths can be combined into synthetic summary paths based on three similarity measures, namely, locational similarity, directional similarity, and geometric similarity functions. A visualization toolkit based on the space-time cube concept exploits these functionalities to create a user-interactive environment for exploring mobile objects data. Furthermore, the characteristics of visualized trajectories are exported to be utilized for data

  14. Tool-Based Curricula and Visual Learning

    Directory of Open Access Journals (Sweden)

    Dragica Vasileska

    2013-12-01

    Full Text Available In the last twenty years nanotechnology hasrevolutionized the world of information theory, computers andother important disciplines, such as medicine, where it hascontributed significantly in the creation of more sophisticateddiagnostic tools. Therefore, it is important for people working innanotechnology to better understand basic concepts to be morecreative and productive. To further foster the progress onNanotechnology in the USA, the National Science Foundation hascreated the Network for Computational Nanotechnology (NCNand the dissemination of all the information from member andnon-member participants of the NCN is enabled by thecommunity website www.nanoHUB.org. nanoHUB’s signatureservices online simulation that enables the operation ofsophisticated research and educational simulation engines with acommon browser. No software installation or local computingpower is needed. The simulation tools as well as nano-conceptsare augmented by educational materials, assignments, and toolbasedcurricula, which are assemblies of tools that help studentsexcel in a particular area.As elaborated later in the text, it is the visual mode of learningthat we are exploiting in achieving faster and better results withstudents that go through simulation tool-based curricula. Thereare several tool based curricula already developed on thenanoHUB and undergoing further development, out of which fiveare directly related to nanoelectronics. They are: ABACUS –device simulation module; ACUTE – Computational Electronicsmodule; ANTSY – bending toolkit; and AQME – quantummechanics module. The methodology behind tool-based curriculais discussed in details. Then, the current status of each module ispresented, including user statistics and student learningindicatives. Particular simulation tool is explored further todemonstrate the ease by which students can grasp information.Representative of Abacus is PN-Junction Lab; representative ofAQME is PCPBT tool; and

  15. chimeraviz: a tool for visualizing chimeric RNA.

    Science.gov (United States)

    Lågstad, Stian; Zhao, Sen; Hoff, Andreas M; Johannessen, Bjarne; Lingjærde, Ole Christian; Skotheim, Rolf I

    2017-09-15

    Advances in high-throughput RNA sequencing have enabled more efficient detection of fusion transcripts, but the technology and associated software used for fusion detection from sequencing data often yield a high false discovery rate. Good prioritization of the results is important, and this can be helped by a visualization framework that automatically integrates RNA data with known genomic features. Here we present chimeraviz , a Bioconductor package that automates the creation of chimeric RNA visualizations. The package supports input from nine different fusion-finder tools: deFuse, EricScript, InFusion, JAFFA, FusionCatcher, FusionMap, PRADA, SOAPfuse and STAR-FUSION. chimeraviz is an R package available via Bioconductor ( https://bioconductor.org/packages/release/bioc/html/chimeraviz.html ) under Artistic-2.0. Source code and support is available at GitHub ( https://github.com/stianlagstad/chimeraviz ). rolf.i.skotheim@rr-research.no. Supplementary data are available at Bioinformatics online. © The Author(s) 2017. Published by Oxford University Press.

  16. 5D Task Analysis Visualization Tool Phase II, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — The creation of a five-dimensional task analysis visualization (5D-TAV) software tool for Task Analysis and Workload Planning using multi-dimensional visualization...

  17. 5D Task Analysis Visualization Tool, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — The creation of a five-dimensional task analysis visualization (5D-TAV) software tool for Task Analysis and Workload Planning using multi-dimensional visualization...

  18. Development of Visualization Tools for ZPPR-15 Analysis

    International Nuclear Information System (INIS)

    Lee, Min Jae; Kim, Sang Ji

    2014-01-01

    ZPPR-15 cores consist of various drawer masters that have great heterogeneity. In order to build a proper homogenization strategy, the geometry of the drawer masters should be carefully analyzed with a visualization. Additionally, a visualization of drawer masters and the core configuration is necessary for minimizing human error during the input processing. For this purpose, visualization tools for a ZPPR-15 analysis has been developed based on a Perl script. In the following section, the implementation of visualization tools will be described and various visualization samples for both drawer masters and ZPPR-15 cores will be demonstrated. Visualization tools for drawer masters and a core configuration were successfully developed for a ZPPR-15 analysis. The visualization tools are expected to be useful for understanding ZPPR-15 experiments, and finding deterministic models of ZPPR-15. It turned out that generating VTK files is handy but the application of VTK files is powerful with the aid of the VISIT program

  19. uVis: A Formula-Based Visualization Tool

    DEFF Research Database (Denmark)

    Pantazos, Kostas; Xu, Shangjin; Kuhail, Mohammad Amin

    Several tools use programming approaches for developing advanced visualizations. Others can with a few steps create simple visualizations with built-in patterns, and users with limited IT experience can use them. However, it is programming and time demanding to create and customize...... these visualizations. We introduce uVis, a tool that allows users with advanced spreadsheet-like IT knowledge and basic database understanding to create simple as well as advanced visualizations. These users construct visualizations by combining building blocks (i.e. controls, shapes). They specify spreadsheet...

  20. Visual illusion of tool use recalibrates tactile perception

    Science.gov (United States)

    Miller, Luke E.; Longo, Matthew R.; Saygin, Ayse P.

    2018-01-01

    Brief use of a tool recalibrates multisensory representations of the user’s body, a phenomenon called tool embodiment. Despite two decades of research, little is known about its boundary conditions. It has been widely argued that embodiment requires active tool use, suggesting a critical role for somatosensory and motor feedback. The present study used a visual illusion to cast doubt on this view. We used a mirror-based setup to induce a visual experience of tool use with an arm that was in fact stationary. Following illusory tool use, tactile perception was recalibrated on this stationary arm, and with equal magnitude as physical use. Recalibration was not found following illusory passive tool holding, and could not be accounted for by sensory conflict or general interhemispheric plasticity. These results suggest visual tool-use signals play a critical role in driving tool embodiment. PMID:28196765

  1. Bloom: A Relationship Visualization Tool for Complex Networks

    Directory of Open Access Journals (Sweden)

    Frank Horsfall

    2010-07-01

    Full Text Available Faced with an ever-increasing capacity to collect and store data, organizations must find a way to make sense of it to their advantage. Methods are required to simplify the data so that it can inform strategic decisions and help solve problems. Visualization tools are becoming increasingly popular since they can display complex relationships in a simple, visual format. This article describes Bloom, a project at Carleton University to develop an open source visualization tool for complex networks and business ecosystems. It provides an overview of the visualization technology used in the project and demonstrates its potential impact through a case study using real-world data.

  2. Iterating between Tools to Create and Edit Visualizations.

    Science.gov (United States)

    Bigelow, Alex; Drucker, Steven; Fisher, Danyel; Meyer, Miriah

    2017-01-01

    A common workflow for visualization designers begins with a generative tool, like D3 or Processing, to create the initial visualization; and proceeds to a drawing tool, like Adobe Illustrator or Inkscape, for editing and cleaning. Unfortunately, this is typically a one-way process: once a visualization is exported from the generative tool into a drawing tool, it is difficult to make further, data-driven changes. In this paper, we propose a bridge model to allow designers to bring their work back from the drawing tool to re-edit in the generative tool. Our key insight is to recast this iteration challenge as a merge problem - similar to when two people are editing a document and changes between them need to reconciled. We also present a specific instantiation of this model, a tool called Hanpuku, which bridges between D3 scripts and Illustrator. We show several examples of visualizations that are iteratively created using Hanpuku in order to illustrate the flexibility of the approach. We further describe several hypothetical tools that bridge between other visualization tools to emphasize the generality of the model.

  3. Visualization tools for insurance risk processes

    OpenAIRE

    Krzysztof Burnecki; Rafal Weron

    2006-01-01

    This chapter develops on risk processes which, perhaps, are most suitable for computer visualization of all insurance objects. At the same time, risk processes are basic instruments for any non-life actuary – they are vital for calculating the amount of loss that an insurance company may incur.

  4. VisTool: A user interface and visualization development system

    DEFF Research Database (Denmark)

    Xu, Shangjin

    system – to simplify user interface development. VisTool allows user interface development without real programming. With VisTool a designer assembles visual objects (e.g. textboxes, ellipse, etc.) to visualize database contents. In VisTool, visual properties (e.g. color, position, etc.) can be formulas...... programming. However, in Software Engineering, software engineers who develop user interfaces do not follow it. In many cases, it is desirable to use graphical presentations, because a graphical presentation gives a better overview than text forms, and can improve task efficiency and user satisfaction....... However, it is more difficult to follow the classical usability approach for graphical presentation development. These difficulties result from the fact that designers cannot implement user interface with interactions and real data. We developed VisTool – a user interface and visualization development...

  5. TacTool: a tactile rapid prototyping tool for visual interfaces

    NARCIS (Netherlands)

    Keyson, D.V.; Tang, H.K.; Anzai, Y.; Ogawa, K.; Mori, H.

    1995-01-01

    This paper describes the TacTool development tool and input device for designing and evaluating visual user interfaces with tactile feedback. TacTool is currently supported by the IPO trackball with force feedback in the x and y directions. The tool is designed to enable both the designer and the

  6. Interactive visualization tools for the structural biologist.

    Science.gov (United States)

    Porebski, Benjamin T; Ho, Bosco K; Buckle, Ashley M

    2013-10-01

    In structural biology, management of a large number of Protein Data Bank (PDB) files and raw X-ray diffraction images often presents a major organizational problem. Existing software packages that manipulate these file types were not designed for these kinds of file-management tasks. This is typically encountered when browsing through a folder of hundreds of X-ray images, with the aim of rapidly inspecting the diffraction quality of a data set. To solve this problem, a useful functionality of the Macintosh operating system (OSX) has been exploited that allows custom visualization plugins to be attached to certain file types. Software plugins have been developed for diffraction images and PDB files, which in many scenarios can save considerable time and effort. The direct visualization of diffraction images and PDB structures in the file browser can be used to identify key files of interest simply by scrolling through a list of files.

  7. Tools for Visualizing HIV in Cure Research.

    Science.gov (United States)

    Niessl, Julia; Baxter, Amy E; Kaufmann, Daniel E

    2018-02-01

    The long-lived HIV reservoir remains a major obstacle for an HIV cure. Current techniques to analyze this reservoir are generally population-based. We highlight recent developments in methods visualizing HIV, which offer a different, complementary view, and provide indispensable information for cure strategy development. Recent advances in fluorescence in situ hybridization techniques enabled key developments in reservoir visualization. Flow cytometric detection of HIV mRNAs, concurrently with proteins, provides a high-throughput approach to study the reservoir on a single-cell level. On a tissue level, key spatial information can be obtained detecting viral RNA and DNA in situ by fluorescence microscopy. At total-body level, advancements in non-invasive immuno-positron emission tomography (PET) detection of HIV proteins may allow an encompassing view of HIV reservoir sites. HIV imaging approaches provide important, complementary information regarding the size, phenotype, and localization of the HIV reservoir. Visualizing the reservoir may contribute to the design, assessment, and monitoring of HIV cure strategies in vitro and in vivo.

  8. Large Data Visualization with Open-Source Tools

    CERN Multimedia

    CERN. Geneva

    2015-01-01

    Visualization and post-processing of large data have become increasingly challenging and require more and more tools to support the diversity of data to process. In this seminar, we will present a suite of open-source tools supported and developed by Kitware to perform large-scale data visualization and analysis. In particular, we will present ParaView, an open-source tool for parallel visualization of massive datasets, the Visualization Toolkit (VTK), an open-source toolkit for scientific visualization, and Tangelohub, a suite of tools for large data analytics. About the speaker Julien Jomier is directing Kitware's European subsidiary in Lyon, France, where he focuses on European business development. Julien works on a variety of projects in the areas of parallel and distributed computing, mobile computing, image processing, and visualization. He is one of the developers of the Insight Toolkit (ITK), the Visualization Toolkit (VTK), and ParaView. Julien is also leading the CDash project, an open-source co...

  9. Classifying Desirable Features of Software Visualization Tools for Corrective Maintenance

    NARCIS (Netherlands)

    Sensalire, Mariam; Ogao, Patrick; Telea, Alexandru

    2008-01-01

    We provide an evaluation of 15 software visualization tools applicable to corrective maintenance. The tasks supported as well as the techniques used are presented and graded based on the support level. By analyzing user acceptation of current tools, we aim to help developers to select what to

  10. HMMEditor: a visual editing tool for profile hidden Markov model

    Directory of Open Access Journals (Sweden)

    Cheng Jianlin

    2008-03-01

    Full Text Available Abstract Background Profile Hidden Markov Model (HMM is a powerful statistical model to represent a family of DNA, RNA, and protein sequences. Profile HMM has been widely used in bioinformatics research such as sequence alignment, gene structure prediction, motif identification, protein structure prediction, and biological database search. However, few comprehensive, visual editing tools for profile HMM are publicly available. Results We develop a visual editor for profile Hidden Markov Models (HMMEditor. HMMEditor can visualize the profile HMM architecture, transition probabilities, and emission probabilities. Moreover, it provides functions to edit and save HMM and parameters. Furthermore, HMMEditor allows users to align a sequence against the profile HMM and to visualize the corresponding Viterbi path. Conclusion HMMEditor provides a set of unique functions to visualize and edit a profile HMM. It is a useful tool for biological sequence analysis and modeling. Both HMMEditor software and web service are freely available.

  11. A Visualization-Based Tutoring Tool for Engineering Education

    Science.gov (United States)

    Nguyen, Tang-Hung; Khoo, I.-Hung

    2010-06-01

    In engineering disciplines, students usually have hard time to visualize different aspects of engineering analysis and design, which inherently are too complex or abstract to fully understand without the aid of visual explanations or visualizations. As examples, when learning materials and sequences of construction process, students need to visualize how all components of a constructed facility are assembled? Such visualization can not be achieved in a textbook and a traditional lecturing environment. In this paper, the authors present the development of a computer tutoring software, in which different visualization tools including video clips, 3 dimensional models, drawings, pictures/photos together with complementary texts are used to assist students in deeply understanding and effectively mastering materials. The paper will also discuss the implementation and the effectiveness evaluation of the proposed tutoring software, which was used to teach a construction engineering management course offered at California State University, Long Beach.

  12. Development of in-situ visualization tool for PIC simulation

    International Nuclear Information System (INIS)

    Ohno, Nobuaki; Ohtani, Hiroaki

    2014-01-01

    As the capability of a supercomputer is improved, the sizes of simulation and its output data also become larger and larger. Visualization is usually carried out on a researcher's PC with interactive visualization software after performing the computer simulation. However, the data size is becoming too large to do it currently. A promising answer is in-situ visualization. For this case a simulation code is coupled with the visualization code and visualization is performed with the simulation on the same supercomputer. We developed an in-situ visualization tool for particle-in-cell (PIC) simulation and it is provided as a Fortran's module. We coupled it with a PIC simulation code and tested the coupled code on Plasma Simulator supercomputer, and ensured that it works. (author)

  13. Visual Impairment Screening Assessment (VISA) tool: pilot validation.

    Science.gov (United States)

    Rowe, Fiona J; Hepworth, Lauren R; Hanna, Kerry L; Howard, Claire

    2018-03-06

    To report and evaluate a new Vision Impairment Screening Assessment (VISA) tool intended for use by the stroke team to improve identification of visual impairment in stroke survivors. Prospective case cohort comparative study. Stroke units at two secondary care hospitals and one tertiary centre. 116 stroke survivors were screened, 62 by naïve and 54 by non-naïve screeners. Both the VISA screening tool and the comprehensive specialist vision assessment measured case history, visual acuity, eye alignment, eye movements, visual field and visual inattention. Full completion of VISA tool and specialist vision assessment was achieved for 89 stroke survivors. Missing data for one or more sections typically related to patient's inability to complete the assessment. Sensitivity and specificity of the VISA screening tool were 90.24% and 85.29%, respectively; the positive and negative predictive values were 93.67% and 78.36%, respectively. Overall agreement was significant; k=0.736. Lowest agreement was found for screening of eye movement and visual inattention deficits. This early validation of the VISA screening tool shows promise in improving detection accuracy for clinicians involved in stroke care who are not specialists in vision problems and lack formal eye training, with potential to lead to more prompt referral with fewer false positives and negatives. Pilot validation indicates acceptability of the VISA tool for screening of visual impairment in stroke survivors. Sensitivity and specificity were high indicating the potential accuracy of the VISA tool for screening purposes. Results of this study have guided the revision of the VISA screening tool ahead of full clinical validation. © Article author(s) (or their employer(s) unless otherwise stated in the text of the article) 2018. All rights reserved. No commercial use is permitted unless otherwise expressly granted.

  14. Participation and 3D Visualization Tools

    DEFF Research Database (Denmark)

    Mullins, Michael; Jensen, Mikkel Holm; Henriksen, Sune

    2004-01-01

    With a departure point in a workshop held at the VR Media Lab at Aalborg University , this paper deals with aspects of public participation and the use of 3D visualisation tools. The workshop grew from a desire to involve a broad collaboration between the many actors in the city through using new...... perceptions of architectural representation in urban design where 3D visualisation techniques are used. It is the authors? general finding that, while 3D visualisation media have the potential to increase understanding of virtual space for the lay public, as well as for professionals, the lay public require...

  15. Visualizing data mining results with the Brede tools

    Directory of Open Access Journals (Sweden)

    Finn A Nielsen

    2009-07-01

    Full Text Available A few neuroinformatics databases now exist that record results from neuroimaging studies in the form of brain coordinates in stereotaxic space. The Brede Toolbox was originally developed to extract, analyze and visualize data from one of them --- the BrainMap database. Since then the Brede Toolbox has expanded and now includes its own database with coordinates along with ontologies for brain regions and functions: The Brede Database. With Brede Toolbox and Database combined we setup automated workflows for extraction of data, mass meta-analytic data mining and visualizations. Most of the Web presence of the Brede Database is established by a single script executing a workflow involving these steps together with a final generation of Web pages with embedded visualizations and links to interactive three-dimensional models in the Virtual Reality Modeling Language. Apart from the Brede tools I briefly review alternate visualization tools and methods for Internet-based visualization and information visualization as well as portals for visualization tools.

  16. VBioindex: A Visual Tool to Estimate Biodiversity

    Directory of Open Access Journals (Sweden)

    Dong Su Yu

    2015-09-01

    Full Text Available Biological diversity, also known as biodiversity, is an important criterion for measuring the value of an ecosystem. As biodiversity is closely related to human welfare and quality of life, many efforts to restore and maintain the biodiversity of species have been made by government agencies and non-governmental organizations, thereby drawing a substantial amount of international attention. In the fields of biological research, biodiversity is widely measured using traditional statistical indices such as the Shannon-Wiener index, species richness, evenness, and relative dominance of species. However, some biologists and ecologists have difficulty using these indices because they require advanced mathematical knowledge and computational techniques. Therefore, we developed VBioindex, a user-friendly program that is capable of measuring the Shannon-Wiener index, species richness, evenness, and relative dominance. VBioindex serves as an easy to use interface and visually represents the results in the form of a simple chart and in addition, VBioindex offers functions for long-term investigations of datasets using time-series analyses.

  17. VMEXT: A Visualization Tool for Mathematical Expression Trees

    OpenAIRE

    Schubotz, Moritz; Meuschke, Norman; Hepp, Thomas; Cohl, Howard S.; Gipp, Bela

    2017-01-01

    Mathematical expressions can be represented as a tree consisting of terminal symbols, such as identifiers or numbers (leaf nodes), and functions or operators (non-leaf nodes). Expression trees are an important mechanism for storing and processing mathematical expressions as well as the most frequently used visualization of the structure of mathematical expressions. Typically, researchers and practitioners manually visualize expression trees using general-purpose tools. This approach is labori...

  18. Visual Decision Support Tool for Supporting Asset ...

    Science.gov (United States)

    Abstract:Managing urban water infrastructures faces the challenge of jointly dealing with assets of diverse types, useful life, cost, ages and condition. Service quality and sustainability require sound long-term planning, well aligned with tactical and operational planning and management. In summary, the objective of an integrated approach to infrastructure asset management is to assist utilities answer the following questions:•Who are we at present?•What service do we deliver?•What do we own?•Where do we want to be in the long-term?•How do we get there?The AWARE-P approach (www.aware-p.org) offers a coherent methodological framework and a valuable portfolio of software tools. It is designed to assist water supply and wastewater utility decision-makers in their analyses and planning processes. It is based on a Plan-Do-Check-Act process and is in accordance with the key principles of the International Standards Organization (ISO) 55000 standards on asset management. It is compatible with, and complementary to WERF’s SIMPLE framework. The software assists in strategic, tactical, and operational planning, through a non-intrusive, web-based, collaborative environment where objectives and metrics drive IAM planning. It is aimed at industry professionals and managers, as well as at the consultants and technical experts that support them. It is easy to use and maximizes the value of information from multiple existing data sources, both in da

  19. Standalone visualization tool for three-dimensional DRAGON geometrical models

    International Nuclear Information System (INIS)

    Lukomski, A.; McIntee, B.; Moule, D.; Nichita, E.

    2008-01-01

    DRAGON is a neutron transport and depletion code able to solve one-, two- and three-dimensional problems. To date DRAGON provides two visualization modules, able to represent respectively two- and three-dimensional geometries. The two-dimensional visualization module generates a postscript file, while the three dimensional visualization module generates a MATLAB M-file with instructions for drawing the tracks in the DRAGON TRACKING data structure, which implicitly provide a representation of the geometry. The current work introduces a new, standalone, tool based on the open-source Visualization Toolkit (VTK) software package which allows the visualization of three-dimensional geometrical models by reading the DRAGON GEOMETRY data structure and generating an axonometric image which can be manipulated interactively by the user. (author)

  20. New tools to aid in scientific computing and visualization

    International Nuclear Information System (INIS)

    Wallace, M.G.; Christian-Frear, T.L.

    1992-01-01

    In this paper, two computer programs are described which aid in the pre- and post-processing of computer generated data. CoMeT (Computational Mechanics Toolkit) is a customizable, interactive, graphical, menu-driven program that provides the analyst with a consistent user-friendly interface to analysis codes. Trans Vol (Transparent Volume Visualization) is a specialized tool for the scientific three-dimensional visualization of complex solids by the technique of volume rendering. Both tools are described in basic detail along with an application example concerning the simulation of contaminant migration from an underground nuclear repository

  1. CTViz: A tool for the visualization of transport in nanocomposites.

    Science.gov (United States)

    Beach, Benjamin; Brown, Joshua; Tarlton, Taylor; Derosa, Pedro A

    2016-05-01

    A visualization tool (CTViz) for charge transport processes in 3-D hybrid materials (nanocomposites) was developed, inspired by the need for a graphical application to assist in code debugging and data presentation of an existing in-house code. As the simulation code grew, troubleshooting problems grew increasingly difficult without an effective way to visualize 3-D samples and charge transport in those samples. CTViz is able to produce publication and presentation quality visuals of the simulation box, as well as static and animated visuals of the paths of individual carriers through the sample. CTViz was designed to provide a high degree of flexibility in the visualization of the data. A feature that characterizes this tool is the use of shade and transparency levels to highlight important details in the morphology or in the transport paths by hiding or dimming elements of little relevance to the current view. This is fundamental for the visualization of 3-D systems with complex structures. The code presented here provides these required capabilities, but has gone beyond the original design and could be used as is or easily adapted for the visualization of other particulate transport where transport occurs on discrete paths. Copyright © 2016 Elsevier Inc. All rights reserved.

  2. ASCI visualization tool evaluation, Version 2.0

    Energy Technology Data Exchange (ETDEWEB)

    Kegelmeyer, P. [ed.] [Sandia National Labs., Livermore, CA (United States). Center for Computational Engineering

    1997-04-01

    The charter of the ASCI Visualization Common Tools subgroup was to investigate and evaluate 3D scientific visualization tools. As part of that effort, a Tri-Lab evaluation effort was launched in February of 1996. The first step was to agree on a thoroughly documented list of 32 features against which all tool candidates would be evaluated. These evaluation criteria were both gleaned from a user survey and determined from informed extrapolation into the future, particularly as concerns the 3D nature and extremely large size of ASCI data sets. The second step was to winnow a field of 41 candidate tools down to 11. The selection principle was to be as inclusive as practical, retaining every tool that seemed to hold any promise of fulfilling all of ASCI`s visualization needs. These 11 tools were then closely investigated by volunteer evaluators distributed across LANL, LLNL, and SNL. This report contains the results of those evaluations, as well as a discussion of the evaluation philosophy and criteria.

  3. Human Factors Evaluation of Advanced Electric Power Grid Visualization Tools

    Energy Technology Data Exchange (ETDEWEB)

    Greitzer, Frank L.; Dauenhauer, Peter M.; Wierks, Tamara G.; Podmore, Robin

    2009-04-01

    This report describes initial human factors evaluation of four visualization tools (Graphical Contingency Analysis, Force Directed Graphs, Phasor State Estimator and Mode Meter/ Mode Shapes) developed by PNNL, and proposed test plans that may be implemented to evaluate their utility in scenario-based experiments.

  4. Visualization tool. 3DAVS and polarization-type VR system

    International Nuclear Information System (INIS)

    Takeda, Yasuhiro; Ueshima, Yutaka

    2003-01-01

    In the visualization work of simulation data in every advanced research field, what is used most in the report or the presentation as a research result has still remained in the stages of the still picture or the 2-dimensional animation, in spite of recent abundance of various visualization software. With the recent progress of computational environment, however, more complicated phenomena can be so easily computed that the results are more needed to be comprehensible as well as intelligible. Therefore, it inevitably requires an animation rather than a still picture, or 3-dimensional display (virtual reality) rather than 2-dimensional one. In this report, two visualization tools, 3DAVS and Polarization-Type VR system are described as the data expression method after visualization processing. (author)

  5. Haptic over visual information in the distribution of visual attention after tool-use in near and far space.

    Science.gov (United States)

    Park, George D; Reed, Catherine L

    2015-10-01

    Despite attentional prioritization for grasping space near the hands, tool-use appears to transfer attentional bias to the tool's end/functional part. The contributions of haptic and visual inputs to attentional distribution along a tool were investigated as a function of tool-use in near (Experiment 1) and far (Experiment 2) space. Visual attention was assessed with a 50/50, go/no-go, target discrimination task, while a tool was held next to targets appearing near the tool-occupied hand or tool-end. Target response times (RTs) and sensitivity (d-prime) were measured at target locations, before and after functional tool practice for three conditions: (1) open-tool: tool-end visible (visual + haptic inputs), (2) hidden-tool: tool-end visually obscured (haptic input only), and (3) short-tool: stick missing tool's length/end (control condition: hand occupied but no visual/haptic input). In near space, both open- and hidden-tool groups showed a tool-end, attentional bias (faster RTs toward tool-end) before practice; after practice, RTs near the hand improved. In far space, the open-tool group showed no bias before practice; after practice, target RTs near the tool-end improved. However, the hidden-tool group showed a consistent tool-end bias despite practice. Lack of short-tool group results suggested that hidden-tool group results were specific to haptic inputs. In conclusion, (1) allocation of visual attention along a tool due to tool practice differs in near and far space, and (2) visual attention is drawn toward the tool's end even when visually obscured, suggesting haptic input provides sufficient information for directing attention along the tool.

  6. IViPP: A Tool for Visualization in Particle Physics

    Science.gov (United States)

    Tran, Hieu; Skiba, Elizabeth; Baldwin, Doug

    2011-10-01

    Experiments and simulations in physics generate a lot of data; visualization is helpful to prepare that data for analysis. IViPP (Interactive Visualizations in Particle Physics) is an interactive computer program that visualizes results of particle physics simulations or experiments. IViPP can handle data from different simulators, such as SRIM or MCNP. It can display relevant geometry and measured scalar data; it can do simple selection from the visualized data. In order to be an effective visualization tool, IViPP must have a software architecture that can flexibly adapt to new data sources and display styles. It must be able to display complicated geometry and measured data with a high dynamic range. We therefore organize it in a highly modular structure, we develop libraries to describe geometry algorithmically, use rendering algorithms running on the powerful GPU to display 3-D geometry at interactive rates, and we represent scalar values in a visual form of scientific notation that shows both mantissa and exponent. This work was supported in part by the US Department of Energy through the Laboratory for Laser Energetics (LLE), with special thanks to Craig Sangster at LLE.

  7. Abstractocyte: A Visual Tool for Exploring Nanoscale Astroglial Cells

    KAUST Repository

    Mohammed, Haneen; Al-Awami, Ali K.; Beyer, Johanna; Cali, Corrado; Magistretti, Pierre J.; Pfister, Hanspeter; Hadwiger, Markus

    2017-01-01

    This paper presents Abstractocyte, a system for the visual analysis of astrocytes and their relation to neurons, in nanoscale volumes of brain tissue. Astrocytes are glial cells, i.e., non-neuronal cells that support neurons and the nervous system. The study of astrocytes has immense potential for understanding brain function. However, their complex and widely-branching structure requires high-resolution electron microscopy imaging and makes visualization and analysis challenging. Furthermore, the structure and function of astrocytes is very different from neurons, and therefore requires the development of new visualization and analysis tools. With Abstractocyte, biologists can explore the morphology of astrocytes using various visual abstraction levels, while simultaneously analyzing neighboring neurons and their connectivity. We define a novel, conceptual 2D abstraction space for jointly visualizing astrocytes and neurons. Neuroscientists can choose a specific joint visualization as a point in this space. Interactively moving this point allows them to smoothly transition between different abstraction levels in an intuitive manner. In contrast to simply switching between different visualizations, this preserves the visual context and correlations throughout the transition. Users can smoothly navigate from concrete, highly-detailed 3D views to simplified and abstracted 2D views. In addition to investigating astrocytes, neurons, and their relationships, we enable the interactive analysis of the distribution of glycogen, which is of high importance to neuroscientists. We describe the design of Abstractocyte, and present three case studies in which neuroscientists have successfully used our system to assess astrocytic coverage of synapses, glycogen distribution in relation to synapses, and astrocytic-mitochondria coverage.

  8. Abstractocyte: A Visual Tool for Exploring Nanoscale Astroglial Cells

    KAUST Repository

    Mohammed, Haneen

    2017-08-28

    This paper presents Abstractocyte, a system for the visual analysis of astrocytes and their relation to neurons, in nanoscale volumes of brain tissue. Astrocytes are glial cells, i.e., non-neuronal cells that support neurons and the nervous system. The study of astrocytes has immense potential for understanding brain function. However, their complex and widely-branching structure requires high-resolution electron microscopy imaging and makes visualization and analysis challenging. Furthermore, the structure and function of astrocytes is very different from neurons, and therefore requires the development of new visualization and analysis tools. With Abstractocyte, biologists can explore the morphology of astrocytes using various visual abstraction levels, while simultaneously analyzing neighboring neurons and their connectivity. We define a novel, conceptual 2D abstraction space for jointly visualizing astrocytes and neurons. Neuroscientists can choose a specific joint visualization as a point in this space. Interactively moving this point allows them to smoothly transition between different abstraction levels in an intuitive manner. In contrast to simply switching between different visualizations, this preserves the visual context and correlations throughout the transition. Users can smoothly navigate from concrete, highly-detailed 3D views to simplified and abstracted 2D views. In addition to investigating astrocytes, neurons, and their relationships, we enable the interactive analysis of the distribution of glycogen, which is of high importance to neuroscientists. We describe the design of Abstractocyte, and present three case studies in which neuroscientists have successfully used our system to assess astrocytic coverage of synapses, glycogen distribution in relation to synapses, and astrocytic-mitochondria coverage.

  9. A Flexible Visualization Tool for Rapid Access to EFIT Results

    International Nuclear Information System (INIS)

    Zhang Ruirui; Xiao Bingjia; Luo Zhengping

    2014-01-01

    This paper introduces the design and implementation of an interactive tool, the EASTViewer, for the visualization of plasma equilibrium reconstruction results for EAST (the Experimental Advanced Superconducting Tokamak). Aimed at the operating system independently, Python, when combined with the PyGTK toolkit, is used as the programming language. Using modular design, the EASTViewer provides a unified interface with great flexibility. It is easy to access numerous data sources either from local data files or an MDSplus tree, and with the pre-defined configuration files, it can be extended to other tokamaks. The EASTViewer has been used as the major tool to visualize equilibrium data since the second EAST campaign in 2008, and it has been verified that the EASTViewer features a user-friendly interface, and has easy access to numerous data sources and cross-platforms. (fusion engineering)

  10. Scientific Visualization Tools for Enhancement of Undergraduate Research

    Science.gov (United States)

    Rodriguez, W. J.; Chaudhury, S. R.

    2001-05-01

    Undergraduate research projects that utilize remote sensing satellite instrument data to investigate atmospheric phenomena pose many challenges. A significant challenge is processing large amounts of multi-dimensional data. Remote sensing data initially requires mining; filtering of undesirable spectral, instrumental, or environmental features; and subsequently sorting and reformatting to files for easy and quick access. The data must then be transformed according to the needs of the investigation(s) and displayed for interpretation. These multidimensional datasets require views that can range from two-dimensional plots to multivariable-multidimensional scientific visualizations with animations. Science undergraduate students generally find these data processing tasks daunting. Generally, researchers are required to fully understand the intricacies of the dataset and write computer programs or rely on commercially available software, which may not be trivial to use. In the time that undergraduate researchers have available for their research projects, learning the data formats, programming languages, and/or visualization packages is impractical. When dealing with large multi-dimensional data sets appropriate Scientific Visualization tools are imperative in allowing students to have a meaningful and pleasant research experience, while producing valuable scientific research results. The BEST Lab at Norfolk State University has been creating tools for multivariable-multidimensional analysis of Earth Science data. EzSAGE and SAGE4D have been developed to sort, analyze and visualize SAGE II (Stratospheric Aerosol and Gas Experiment) data with ease. Three- and four-dimensional visualizations in interactive environments can be produced. EzSAGE provides atmospheric slices in three-dimensions where the researcher can change the scales in the three-dimensions, color tables and degree of smoothing interactively to focus on particular phenomena. SAGE4D provides a navigable

  11. Genovar: a detection and visualization tool for genomic variants.

    Science.gov (United States)

    Jung, Kwang Su; Moon, Sanghoon; Kim, Young Jin; Kim, Bong-Jo; Park, Kiejung

    2012-05-08

    Along with single nucleotide polymorphisms (SNPs), copy number variation (CNV) is considered an important source of genetic variation associated with disease susceptibility. Despite the importance of CNV, the tools currently available for its analysis often produce false positive results due to limitations such as low resolution of array platforms, platform specificity, and the type of CNV. To resolve this problem, spurious signals must be separated from true signals by visual inspection. None of the previously reported CNV analysis tools support this function and the simultaneous visualization of comparative genomic hybridization arrays (aCGH) and sequence alignment. The purpose of the present study was to develop a useful program for the efficient detection and visualization of CNV regions that enables the manual exclusion of erroneous signals. A JAVA-based stand-alone program called Genovar was developed. To ascertain whether a detected CNV region is a novel variant, Genovar compares the detected CNV regions with previously reported CNV regions using the Database of Genomic Variants (DGV, http://projects.tcag.ca/variation) and the Single Nucleotide Polymorphism Database (dbSNP). The current version of Genovar is capable of visualizing genomic data from sources such as the aCGH data file and sequence alignment format files. Genovar is freely accessible and provides a user-friendly graphic user interface (GUI) to facilitate the detection of CNV regions. The program also provides comprehensive information to help in the elimination of spurious signals by visual inspection, making Genovar a valuable tool for reducing false positive CNV results. http://genovar.sourceforge.net/.

  12. Living Color Frame System: PC graphics tool for data visualization

    Science.gov (United States)

    Truong, Long V.

    1993-01-01

    Living Color Frame System (LCFS) is a personal computer software tool for generating real-time graphics applications. It is highly applicable for a wide range of data visualization in virtual environment applications. Engineers often use computer graphics to enhance the interpretation of data under observation. These graphics become more complicated when 'run time' animations are required, such as found in many typical modern artificial intelligence and expert systems. Living Color Frame System solves many of these real-time graphics problems.

  13. VRML and Collaborative Environments: New Tools for Networked Visualization

    Science.gov (United States)

    Crutcher, R. M.; Plante, R. L.; Rajlich, P.

    We present two new applications that engage the network as a tool for astronomical research and/or education. The first is a VRML server which allows users over the Web to interactively create three-dimensional visualizations of FITS images contained in the NCSA Astronomy Digital Image Library (ADIL). The server's Web interface allows users to select images from the ADIL, fill in processing parameters, and create renderings featuring isosurfaces, slices, contours, and annotations; the often extensive computations are carried out on an NCSA SGI supercomputer server without the user having an individual account on the system. The user can then download the 3D visualizations as VRML files, which may be rotated and manipulated locally on virtually any class of computer. The second application is the ADILBrowser, a part of the NCSA Horizon Image Data Browser Java package. ADILBrowser allows a group of participants to browse images from the ADIL within a collaborative session. The collaborative environment is provided by the NCSA Habanero package which includes text and audio chat tools and a white board. The ADILBrowser is just an example of a collaborative tool that can be built with the Horizon and Habanero packages. The classes provided by these packages can be assembled to create custom collaborative applications that visualize data either from local disk or from anywhere on the network.

  14. Tools and procedures for visualization of proteins and other biomolecules.

    Science.gov (United States)

    Pan, Lurong; Aller, Stephen G

    2015-04-01

    Protein, peptides, and nucleic acids are biomolecules that drive biological processes in living organisms. An enormous amount of structural data for a large number of these biomolecules has been described with atomic precision in the form of structural "snapshots" that are freely available in public repositories. These snapshots can help explain how the biomolecules function, the nature of interactions between multi-molecular complexes, and even how small-molecule drugs can modulate the biomolecules for clinical benefits. Furthermore, these structural snapshots serve as inputs for sophisticated computer simulations to turn the biomolecules into moving, "breathing" molecular machines for understanding their dynamic properties in real-time computer simulations. In order for the researcher to take advantage of such a wealth of structural data, it is necessary to gain competency in the use of computer molecular visualization tools for exploring the structures and visualizing three-dimensional spatial representations. Here, we present protocols for using two common visualization tools--the Web-based Jmol and the stand-alone PyMOL package--as well as a few examples of other popular tools. Copyright © 2015 John Wiley & Sons, Inc.

  15. STRING 3: An Advanced Groundwater Flow Visualization Tool

    Science.gov (United States)

    Schröder, Simon; Michel, Isabel; Biedert, Tim; Gräfe, Marius; Seidel, Torsten; König, Christoph

    2016-04-01

    The visualization of 3D groundwater flow is a challenging task. Previous versions of our software STRING [1] solely focused on intuitive visualization of complex flow scenarios for non-professional audiences. STRING, developed by Fraunhofer ITWM (Kaiserslautern, Germany) and delta h Ingenieurgesellschaft mbH (Witten, Germany), provides the necessary means for visualization of both 2D and 3D data on planar and curved surfaces. In this contribution we discuss how to extend this approach to a full 3D tool and its challenges in continuation of Michel et al. [2]. This elevates STRING from a post-production to an exploration tool for experts. In STRING moving pathlets provide an intuition of velocity and direction of both steady-state and transient flows. The visualization concept is based on the Lagrangian view of the flow. To capture every detail of the flow an advanced method for intelligent, time-dependent seeding is used building on the Finite Pointset Method (FPM) developed by Fraunhofer ITWM. Lifting our visualization approach from 2D into 3D provides many new challenges. With the implementation of a seeding strategy for 3D one of the major problems has already been solved (see Schröder et al. [3]). As pathlets only provide an overview of the velocity field other means are required for the visualization of additional flow properties. We suggest the use of Direct Volume Rendering and isosurfaces for scalar features. In this regard we were able to develop an efficient approach for combining the rendering through raytracing of the volume and regular OpenGL geometries. This is achieved through the use of Depth Peeling or A-Buffers for the rendering of transparent geometries. Animation of pathlets requires a strict boundary of the simulation domain. Hence, STRING needs to extract the boundary, even from unstructured data, if it is not provided. In 3D we additionally need a good visualization of the boundary itself. For this the silhouette based on the angle of

  16. Visualization tool for human-machine interface designers

    Science.gov (United States)

    Prevost, Michael P.; Banda, Carolyn P.

    1991-06-01

    As modern human-machine systems continue to grow in capabilities and complexity, system operators are faced with integrating and managing increased quantities of information. Since many information components are highly related to each other, optimizing the spatial and temporal aspects of presenting information to the operator has become a formidable task for the human-machine interface (HMI) designer. The authors describe a tool in an early stage of development, the Information Source Layout Editor (ISLE). This tool is to be used for information presentation design and analysis; it uses human factors guidelines to assist the HMI designer in the spatial layout of the information required by machine operators to perform their tasks effectively. These human factors guidelines address such areas as the functional and physical relatedness of information sources. By representing these relationships with metaphors such as spring tension, attractors, and repellers, the tool can help designers visualize the complex constraint space and interacting effects of moving displays to various alternate locations. The tool contains techniques for visualizing the relative 'goodness' of a configuration, as well as mechanisms such as optimization vectors to provide guidance toward a more optimal design. Also available is a rule-based design checker to determine compliance with selected human factors guidelines.

  17. Statistical and Visualization Data Mining Tools for Foundry Production

    Directory of Open Access Journals (Sweden)

    M. Perzyk

    2007-07-01

    Full Text Available In recent years a rapid development of a new, interdisciplinary knowledge area, called data mining, is observed. Its main task is extracting useful information from previously collected large amount of data. The main possibilities and potential applications of data mining in manufacturing industry are characterized. The main types of data mining techniques are briefly discussed, including statistical, artificial intelligence, data base and visualization tools. The statistical methods and visualization methods are presented in more detail, showing their general possibilities, advantages as well as characteristic examples of applications in foundry production. Results of the author’s research are presented, aimed at validation of selected statistical tools which can be easily and effectively used in manufacturing industry. A performance analysis of ANOVA and contingency tables based methods, dedicated for determination of the most significant process parameters as well as for detection of possible interactions among them, has been made. Several numerical tests have been performed using simulated data sets, with assumed hidden relationships as well some real data, related to the strength of ductile cast iron, collected in a foundry. It is concluded that the statistical methods offer relatively easy and fairly reliable tools for extraction of that type of knowledge about foundry manufacturing processes. However, further research is needed, aimed at explanation of some imperfections of the investigated tools as well assessment of their validity for more complex tasks.

  18. 3D Immersive Visualization: An Educational Tool in Geosciences

    Science.gov (United States)

    Pérez-Campos, N.; Cárdenas-Soto, M.; Juárez-Casas, M.; Castrejón-Pineda, R.

    2007-05-01

    3D immersive visualization is an innovative tool currently used in various disciplines, such as medicine, architecture, engineering, video games, etc. Recently, the Universidad Nacional Autónoma de México (UNAM) mounted a visualization theater (Ixtli) with leading edge technology, for academic and research purposes that require immersive 3D tools for a better understanding of the concepts involved. The Division of Engineering in Earth Sciences of the School of Engineering, UNAM, is running a project focused on visualization of geoscience data. Its objective is to incoporate educational material in geoscience courses in order to support and to improve the teaching-learning process, especially in well-known difficult topics for students. As part of the project, proffessors and students are trained in visualization techniques, then their data are adapted and visualized in Ixtli as part of a class or a seminar, where all the attendants can interact, not only among each other but also with the object under study. As part of our results, we present specific examples used in basic geophysics courses, such as interpreted seismic cubes, seismic-wave propagation models, and structural models from bathymetric, gravimetric and seismological data; as well as examples from ongoing applied projects, such as a modeled SH upward wave, the occurrence of an earthquake cluster in 1999 in the Popocatepetl volcano, and a risk atlas from Delegación Alvaro Obregón in Mexico City. All these examples, plus those to come, constitute a library for students and professors willing to explore another dimension of the teaching-learning process. Furthermore, this experience can be enhaced by rich discussions and interactions by videoconferences with other universities and researchers.

  19. Visual Data Comm: A Tool for Visualizing Data Communication in the Multi Sector Planner Study

    Science.gov (United States)

    Lee, Hwasoo Eric

    2010-01-01

    Data comm is a new technology proposed in future air transport system as a potential tool to provide comprehensive data connectivity. It is a key enabler to manage 4D trajectory digitally, potentially resulting in improved flight times and increased throughput. Future concepts with data comm integration have been tested in a number of human-in-the-loop studies but analyzing the results has proven to be particularly challenging because future traffic environment in which data comm is fully enabled has assumed high traffic density, resulting in data set with large amount of information. This paper describes the motivation, design, current and potential future application of Visual Data Comm (VDC), a tool for visualizing data developed in Java using Processing library which is a tool package designed for interactive visualization programming. This paper includes an example of an application of VDC on data pertaining to the most recent Multi Sector Planner study, conducted at NASA s Airspace Operations Laboratory in 2009, in which VDC was used to visualize and interpret data comm activities

  20. SNPversity: a web-based tool for visualizing diversity

    Science.gov (United States)

    Schott, David A; Vinnakota, Abhinav G; Portwood, John L; Andorf, Carson M

    2018-01-01

    Abstract Many stand-alone desktop software suites exist to visualize single nucleotide polymorphism (SNP) diversity, but web-based software that can be easily implemented and used for biological databases is absent. SNPversity was created to answer this need by building an open-source visualization tool that can be implemented on a Unix-like machine and served through a web browser that can be accessible worldwide. SNPversity consists of a HDF5 database back-end for SNPs, a data exchange layer powered by TASSEL libraries that represent data in JSON format, and an interface layer using PHP to visualize SNP information. SNPversity displays data in real-time through a web browser in grids that are color-coded according to a given SNP’s allelic status and mutational state. SNPversity is currently available at MaizeGDB, the maize community’s database, and will be soon available at GrainGenes, the clade-oriented database for Triticeae and Avena species, including wheat, barley, rye, and oat. The code and documentation are uploaded onto github, and they are freely available to the public. We expect that the tool will be highly useful for other biological databases with a similar need to display SNP diversity through their web interfaces. Database URL: https://www.maizegdb.org/snpversity PMID:29688387

  1. Visualizing Cloud Properties and Satellite Imagery: A Tool for Visualization and Information Integration

    Science.gov (United States)

    Chee, T.; Nguyen, L.; Smith, W. L., Jr.; Spangenberg, D.; Palikonda, R.; Bedka, K. M.; Minnis, P.; Thieman, M. M.; Nordeen, M.

    2017-12-01

    Providing public access to research products including cloud macro and microphysical properties and satellite imagery are a key concern for the NASA Langley Research Center Cloud and Radiation Group. This work describes a web based visualization tool and API that allows end users to easily create customized cloud product and satellite imagery, ground site data and satellite ground track information that is generated dynamically. The tool has two uses, one to visualize the dynamically created imagery and the other to provide access to the dynamically generated imagery directly at a later time. Internally, we leverage our practical experience with large, scalable application practices to develop a system that has the largest potential for scalability as well as the ability to be deployed on the cloud to accommodate scalability issues. We build upon NASA Langley Cloud and Radiation Group's experience with making real-time and historical satellite cloud product information, satellite imagery, ground site data and satellite track information accessible and easily searchable. This tool is the culmination of our prior experience with dynamic imagery generation and provides a way to build a "mash-up" of dynamically generated imagery and related kinds of information that are visualized together to add value to disparate but related information. In support of NASA strategic goals, our group aims to make as much scientific knowledge, observations and products available to the citizen science, research and interested communities as well as for automated systems to acquire the same information for data mining or other analytic purposes. This tool and the underlying API's provide a valuable research tool to a wide audience both as a standalone research tool and also as an easily accessed data source that can easily be mined or used with existing tools.

  2. Visualization and analysis of atomistic simulation data with OVITO–the Open Visualization Tool

    International Nuclear Information System (INIS)

    Stukowski, Alexander

    2010-01-01

    The Open Visualization Tool (OVITO) is a new 3D visualization software designed for post-processing atomistic data obtained from molecular dynamics or Monte Carlo simulations. Unique analysis, editing and animations functions are integrated into its easy-to-use graphical user interface. The software is written in object-oriented C++, controllable via Python scripts and easily extendable through a plug-in interface. It is distributed as open-source software and can be downloaded from the website http://ovito.sourceforge.net/

  3. Allen Brain Atlas-Driven Visualizations: a web-based gene expression energy visualization tool.

    Science.gov (United States)

    Zaldivar, Andrew; Krichmar, Jeffrey L

    2014-01-01

    The Allen Brain Atlas-Driven Visualizations (ABADV) is a publicly accessible web-based tool created to retrieve and visualize expression energy data from the Allen Brain Atlas (ABA) across multiple genes and brain structures. Though the ABA offers their own search engine and software for researchers to view their growing collection of online public data sets, including extensive gene expression and neuroanatomical data from human and mouse brain, many of their tools limit the amount of genes and brain structures researchers can view at once. To complement their work, ABADV generates multiple pie charts, bar charts and heat maps of expression energy values for any given set of genes and brain structures. Such a suite of free and easy-to-understand visualizations allows for easy comparison of gene expression across multiple brain areas. In addition, each visualization links back to the ABA so researchers may view a summary of the experimental detail. ABADV is currently supported on modern web browsers and is compatible with expression energy data from the Allen Mouse Brain Atlas in situ hybridization data. By creating this web application, researchers can immediately obtain and survey numerous amounts of expression energy data from the ABA, which they can then use to supplement their work or perform meta-analysis. In the future, we hope to enable ABADV across multiple data resources.

  4. Allen Brain Atlas-Driven Visualizations: A Web-Based Gene Expression Energy Visualization Tool

    Directory of Open Access Journals (Sweden)

    Andrew eZaldivar

    2014-05-01

    Full Text Available The Allen Brain Atlas-Driven Visualizations (ABADV is a publicly accessible web-based tool created to retrieve and visualize expression energy data from the Allen Brain Atlas (ABA across multiple genes and brain structures. Though the ABA offers their own search engine and software for researchers to view their growing collection of online public data sets, including extensive gene expression and neuroanatomical data from human and mouse brain, many of their tools limit the amount of genes and brain structures researchers can view at once. To complement their work, ABADV generates multiple pie charts, bar charts and heat maps of expression energy values for any given set of genes and brain structures. Such a suite of free and easy-to-understand visualizations allows for easy comparison of gene expression across multiple brain areas. In addition, each visualization links back to the ABA so researchers may view a summary of the experimental detail. ABADV is currently supported on modern web browsers and is compatible with expression energy data from the Allen Mouse Brain Atlas in situ hybridization data. By creating this web application, researchers can immediately obtain and survey numerous amounts of expression energy data from the ABA, which they can then use to supplement their work or perform meta-analysis. In the future, we hope to enable ABADV across multiple data resources.

  5. IVisTMSA: Interactive Visual Tools for Multiple Sequence Alignments.

    Science.gov (United States)

    Pervez, Muhammad Tariq; Babar, Masroor Ellahi; Nadeem, Asif; Aslam, Naeem; Naveed, Nasir; Ahmad, Sarfraz; Muhammad, Shah; Qadri, Salman; Shahid, Muhammad; Hussain, Tanveer; Javed, Maryam

    2015-01-01

    IVisTMSA is a software package of seven graphical tools for multiple sequence alignments. MSApad is an editing and analysis tool. It can load 409% more data than Jalview, STRAP, CINEMA, and Base-by-Base. MSA comparator allows the user to visualize consistent and inconsistent regions of reference and test alignments of more than 21-MB size in less than 12 seconds. MSA comparator is 5,200% efficient and more than 40% efficient as compared to BALiBASE c program and FastSP, respectively. MSA reconstruction tool provides graphical user interfaces for four popular aligners and allows the user to load several sequence files at a time. FASTA generator converts seven formats of alignments of unlimited size into FASTA format in a few seconds. MSA ID calculator calculates identity matrix of more than 11,000 sequences with a sequence length of 2,696 base pairs in less than 100 seconds. Tree and Distance Matrix calculation tools generate phylogenetic tree and distance matrix, respectively, using neighbor joining% identity and BLOSUM 62 matrix.

  6. Tools and Methods for Visualization of Mesoscale Ocean Eddies

    Science.gov (United States)

    Bemis, K. G.; Liu, L.; Silver, D.; Kang, D.; Curchitser, E.

    2017-12-01

    Mesoscale ocean eddies form in the Gulf Stream and transport heat and nutrients across the ocean basin. The internal structure of these three-dimensional eddies and the kinematics with which they move are critical to a full understanding of their transport capacity. A series of visualization tools have been developed to extract, characterize, and track ocean eddies from 3D modeling results, to visually show the ocean eddy story by applying various illustrative visualization techniques, and to interactively view results stored on a server from a conventional browser. In this work, we apply a feature-based method to track instances of ocean eddies through the time steps of a high-resolution multidecadal regional ocean model and generate a series of eddy paths which reflect the life cycle of individual eddy instances. The basic method uses the Okubu-Weiss parameter to define eddy cores but could be adapted to alternative specifications of an eddy. Stored results include pixel-lists for each eddy instance, tracking metadata for eddy paths, and physical and geometric properties. In the simplest view, isosurfaces are used to display eddies along an eddy path. Individual eddies can then be selected and viewed independently or an eddy path can be viewed in the context of all eddy paths (longer than a specified duration) and the ocean basin. To tell the story of mesoscale ocean eddies, we combined illustrative visualization techniques, including visual effectiveness enhancement, focus+context, and smart visibility, with the extracted volume features to explore eddy characteristics at multiple scales from ocean basin to individual eddy. An evaluation by domain experts indicates that combining our feature-based techniques with illustrative visualization techniques provides an insight into the role eddies play in ocean circulation. A web-based GUI is under development to facilitate easy viewing of stored results. The GUI provides the user control to choose amongst available

  7. Tools for visualization of phosphoinositides in the cell nucleus.

    Science.gov (United States)

    Kalasova, Ilona; Fáberová, Veronika; Kalendová, Alžběta; Yildirim, Sukriye; Uličná, Lívia; Venit, Tomáš; Hozák, Pavel

    2016-04-01

    Phosphoinositides (PIs) are glycerol-based phospholipids containing hydrophilic inositol ring. The inositol ring is mono-, bis-, or tris-phosphorylated yielding seven PIs members. Ample evidence shows that PIs localize both to the cytoplasm and to the nucleus. However, tools for direct visualization of nuclear PIs are limited and many studies thus employ indirect approaches, such as staining of their metabolic enzymes. Since localization and mobility of PIs differ from their metabolic enzymes, these approaches may result in incomplete data. In this paper, we tested commercially available PIs antibodies by light microscopy on fixed cells, tested their specificity using protein-lipid overlay assay and blocking assay, and compared their staining patterns. Additionally, we prepared recombinant PIs-binding domains and tested them on both fixed and live cells by light microscopy. The results provide a useful overview of usability of the tools tested and stress that the selection of adequate tools is critical. Knowing the localization of individual PIs in various functional compartments should enable us to better understand the roles of PIs in the cell nucleus.

  8. Next generation tools for genomic data generation, distribution, and visualization

    Directory of Open Access Journals (Sweden)

    Nix David A

    2010-09-01

    Full Text Available Abstract Background With the rapidly falling cost and availability of high throughput sequencing and microarray technologies, the bottleneck for effectively using genomic analysis in the laboratory and clinic is shifting to one of effectively managing, analyzing, and sharing genomic data. Results Here we present three open-source, platform independent, software tools for generating, analyzing, distributing, and visualizing genomic data. These include a next generation sequencing/microarray LIMS and analysis project center (GNomEx; an application for annotating and programmatically distributing genomic data using the community vetted DAS/2 data exchange protocol (GenoPub; and a standalone Java Swing application (GWrap that makes cutting edge command line analysis tools available to those who prefer graphical user interfaces. Both GNomEx and GenoPub use the rich client Flex/Flash web browser interface to interact with Java classes and a relational database on a remote server. Both employ a public-private user-group security model enabling controlled distribution of patient and unpublished data alongside public resources. As such, they function as genomic data repositories that can be accessed manually or programmatically through DAS/2-enabled client applications such as the Integrated Genome Browser. Conclusions These tools have gained wide use in our core facilities, research laboratories and clinics and are freely available for non-profit use. See http://sourceforge.net/projects/gnomex/, http://sourceforge.net/projects/genoviz/, and http://sourceforge.net/projects/useq.

  9. Next generation tools for genomic data generation, distribution, and visualization.

    Science.gov (United States)

    Nix, David A; Di Sera, Tonya L; Dalley, Brian K; Milash, Brett A; Cundick, Robert M; Quinn, Kevin S; Courdy, Samir J

    2010-09-09

    With the rapidly falling cost and availability of high throughput sequencing and microarray technologies, the bottleneck for effectively using genomic analysis in the laboratory and clinic is shifting to one of effectively managing, analyzing, and sharing genomic data. Here we present three open-source, platform independent, software tools for generating, analyzing, distributing, and visualizing genomic data. These include a next generation sequencing/microarray LIMS and analysis project center (GNomEx); an application for annotating and programmatically distributing genomic data using the community vetted DAS/2 data exchange protocol (GenoPub); and a standalone Java Swing application (GWrap) that makes cutting edge command line analysis tools available to those who prefer graphical user interfaces. Both GNomEx and GenoPub use the rich client Flex/Flash web browser interface to interact with Java classes and a relational database on a remote server. Both employ a public-private user-group security model enabling controlled distribution of patient and unpublished data alongside public resources. As such, they function as genomic data repositories that can be accessed manually or programmatically through DAS/2-enabled client applications such as the Integrated Genome Browser. These tools have gained wide use in our core facilities, research laboratories and clinics and are freely available for non-profit use. See http://sourceforge.net/projects/gnomex/, http://sourceforge.net/projects/genoviz/, and http://sourceforge.net/projects/useq.

  10. How Formal Dynamic Verification Tools Facilitate Novel Concurrency Visualizations

    Science.gov (United States)

    Aananthakrishnan, Sriram; Delisi, Michael; Vakkalanka, Sarvani; Vo, Anh; Gopalakrishnan, Ganesh; Kirby, Robert M.; Thakur, Rajeev

    With the exploding scale of concurrency, presenting valuable pieces of information collected by formal verification tools intuitively and graphically can greatly enhance concurrent system debugging. Traditional MPI program debuggers present trace views of MPI program executions. Such views are redundant, often containing equivalent traces that permute independent MPI calls. In our ISP formal dynamic verifier for MPI programs, we present a collection of alternate views made possible by the use of formal dynamic verification. Some of ISP’s views help pinpoint errors, some facilitate discerning errors by eliminating redundancy, while others help understand the program better by displaying concurrent even orderings that must be respected by all MPI implementations, in the form of completes-before graphs. In this paper, we describe ISP’s graphical user interface (GUI) capabilities in all these areas which are currently supported by a portable Java based GUI, a Microsoft Visual Studio GUI, and an Eclipse based GUI whose development is in progress.

  11. Visualization and interaction tools for aerial photograph mosaics

    Science.gov (United States)

    Fernandes, João Pedro; Fonseca, Alexandra; Pereira, Luís; Faria, Adriano; Figueira, Helder; Henriques, Inês; Garção, Rita; Câmara, António

    1997-05-01

    This paper describes the development of a digital spatial library based on mosaics of digital orthophotos, called Interactive Portugal, that will enable users both to retrieve geospatial information existing in the Portuguese National System for Geographic Information World Wide Web server, and to develop local databases connected to the main system. A set of navigation, interaction, and visualization tools are proposed and discussed. They include sketching, dynamic sketching, and navigation capabilities over the digital orthophotos mosaics. Main applications of this digital spatial library are pointed out and discussed, namely for education, professional, and tourism markets. Future developments are considered. These developments are related to user reactions, technological advancements, and projects that also aim at delivering and exploring digital imagery on the World Wide Web. Future capabilities for site selection and change detection are also considered.

  12. Enhancing Nuclear Newcomer Training with 3D Visualization Learning Tools

    International Nuclear Information System (INIS)

    Gagnon, V.

    2016-01-01

    Full text: While the nuclear power industry is trying to reinforce its safety and regain public support post-Fukushima, it is also faced with a very real challenge that affects its day-to-day activities: a rapidly aging workforce. Statistics show that close to 40% of the current nuclear power industry workforce will retire within the next five years. For newcomer countries, the challenge is even greater, having to develop a completely new workforce. The workforce replacement effort introduces nuclear newcomers of a new generation with different backgrounds and affinities. Major lifestyle differences between the two generations of workers result, amongst other things, in different learning habits and needs for this new breed of learners. Interactivity, high visual content and quick access to information are now necessary to achieve a high level of retention. To enhance existing training programmes or to support the establishment of new training programmes for newcomer countries, L-3 MAPPS has devised learning tools to enhance these training programmes focused on the “Practice-by-Doing” principle. L-3 MAPPS has coupled 3D computer visualization with high-fidelity simulation to bring real-time, simulation-driven animated components and systems allowing immersive and participatory, individual or classroom learning. (author

  13. SnopViz, an interactive snow profile visualization tool

    Science.gov (United States)

    Fierz, Charles; Egger, Thomas; gerber, Matthias; Bavay, Mathias; Techel, Frank

    2016-04-01

    SnopViz is a visualization tool for both simulation outputs of the snow-cover model SNOWPACK and observed snow profiles. It has been designed to fulfil the needs of operational services (Swiss Avalanche Warning Service, Avalanche Canada) as well as offer the flexibility required to satisfy the specific needs of researchers. This JavaScript application runs on any modern browser and does not require an active Internet connection. The open source code is available for download from models.slf.ch where examples can also be run. Both the SnopViz library and the SnopViz User Interface will become a full replacement of the current research visualization tool SN_GUI for SNOWPACK. The SnopViz library is a stand-alone application that parses the provided input files, for example, a single snow profile (CAAML file format) or multiple snow profiles as output by SNOWPACK (PRO file format). A plugin architecture allows for handling JSON objects (JavaScript Object Notation) as well and plugins for other file formats may be added easily. The outputs are provided either as vector graphics (SVG) or JSON objects. The SnopViz User Interface (UI) is a browser based stand-alone interface. It runs in every modern browser, including IE, and allows user interaction with the graphs. SVG, the XML based standard for vector graphics, was chosen because of its easy interaction with JS and a good software support (Adobe Illustrator, Inkscape) to manipulate graphs outside SnopViz for publication purposes. SnopViz provides new visualization for SNOWPACK timeline output as well as time series input and output. The actual output format for SNOWPACK timelines was retained while time series are read from SMET files, a file format used in conjunction with the open source data handling code MeteoIO. Finally, SnopViz is able to render single snow profiles, either observed or modelled, that are provided as CAAML-file. This file format (caaml.org/Schemas/V5.0/Profiles/SnowProfileIACS) is an international

  14. Mapping as a visual health communication tool: promises and dilemmas.

    Science.gov (United States)

    Parrott, Roxanne; Hopfer, Suellen; Ghetian, Christie; Lengerich, Eugene

    2007-01-01

    In the era of evidence-based public health promotion and planning, the use of maps as a form of evidence to communicate about the multiple determinants of cancer is on the rise. Geographic information systems and mapping technologies make future proliferation of this strategy likely. Yet disease maps as a communication form remain largely unexamined. This content analysis considers the presence of multivariate information, credibility cues, and the communication function of publicly accessible maps for cancer control activities. Thirty-six state comprehensive cancer control plans were publicly available in July 2005 and were reviewed for the presence of maps. Fourteen of the 36 state cancer plans (39%) contained map images (N = 59 static maps). A continuum of map inter activity was observed, with 10 states having interactive mapping tools available to query and map cancer information. Four states had both cancer plans with map images and interactive mapping tools available to the public on their Web sites. Of the 14 state cancer plans that depicted map images, two displayed multivariate data in a single map. Nine of the 10 states with interactive mapping capability offered the option to display multivariate health risk messages. The most frequent content category mapped was cancer incidence and mortality, with stage at diagnosis infrequently available. The most frequent communication function served by the maps reviewed was redundancy, as maps repeated information contained in textual forms. The social and ethical implications for communicating about cancer through the use of visual geographic representations are discussed.

  15. Porcupine: A visual pipeline tool for neuroimaging analysis.

    Directory of Open Access Journals (Sweden)

    Tim van Mourik

    2018-05-01

    Full Text Available The field of neuroimaging is rapidly adopting a more reproducible approach to data acquisition and analysis. Data structures and formats are being standardised and data analyses are getting more automated. However, as data analysis becomes more complicated, researchers often have to write longer analysis scripts, spanning different tools across multiple programming languages. This makes it more difficult to share or recreate code, reducing the reproducibility of the analysis. We present a tool, Porcupine, that constructs one's analysis visually and automatically produces analysis code. The graphical representation improves understanding of the performed analysis, while retaining the flexibility of modifying the produced code manually to custom needs. Not only does Porcupine produce the analysis code, it also creates a shareable environment for running the code in the form of a Docker image. Together, this forms a reproducible way of constructing, visualising and sharing one's analysis. Currently, Porcupine links to Nipype functionalities, which in turn accesses most standard neuroimaging analysis tools. Our goal is to release researchers from the constraints of specific implementation details, thereby freeing them to think about novel and creative ways to solve a given problem. Porcupine improves the overview researchers have of their processing pipelines, and facilitates both the development and communication of their work. This will reduce the threshold at which less expert users can generate reusable pipelines. With Porcupine, we bridge the gap between a conceptual and an implementational level of analysis and make it easier for researchers to create reproducible and shareable science. We provide a wide range of examples and documentation, as well as installer files for all platforms on our website: https://timvanmourik.github.io/Porcupine. Porcupine is free, open source, and released under the GNU General Public License v3.0.

  16. Deploying web-based visual exploration tools on the grid

    Energy Technology Data Exchange (ETDEWEB)

    Jankun-Kelly, T.J.; Kreylos, Oliver; Shalf, John; Ma, Kwan-Liu; Hamann, Bernd; Joy, Kenneth; Bethel, E. Wes

    2002-02-01

    We discuss a web-based portal for the exploration, encapsulation, and dissemination of visualization results over the Grid. This portal integrates three components: an interface client for structured visualization exploration, a visualization web application to manage the generation and capture of the visualization results, and a centralized portal application server to access and manage grid resources. We demonstrate the usefulness of the developed system using an example for Adaptive Mesh Refinement (AMR) data visualization.

  17. Visual tool for estimating the fractal dimension of images

    Science.gov (United States)

    Grossu, I. V.; Besliu, C.; Rusu, M. V.; Jipa, Al.; Bordeianu, C. C.; Felea, D.

    2009-10-01

    This work presents a new Visual Basic 6.0 application for estimating the fractal dimension of images, based on an optimized version of the box-counting algorithm. Following the attempt to separate the real information from "noise", we considered also the family of all band-pass filters with the same band-width (specified as parameter). The fractal dimension can be thus represented as a function of the pixel color code. The program was used for the study of paintings cracks, as an additional tool which can help the critic to decide if an artistic work is original or not. Program summaryProgram title: Fractal Analysis v01 Catalogue identifier: AEEG_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEEG_v1_0.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: Standard CPC licence, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 29 690 No. of bytes in distributed program, including test data, etc.: 4 967 319 Distribution format: tar.gz Programming language: MS Visual Basic 6.0 Computer: PC Operating system: MS Windows 98 or later RAM: 30M Classification: 14 Nature of problem: Estimating the fractal dimension of images. Solution method: Optimized implementation of the box-counting algorithm. Use of a band-pass filter for separating the real information from "noise". User friendly graphical interface. Restrictions: Although various file-types can be used, the application was mainly conceived for the 8-bit grayscale, windows bitmap file format. Running time: In a first approximation, the algorithm is linear.

  18. Visualization and Quality Control Web Tools for CERES Products

    Science.gov (United States)

    Mitrescu, C.; Doelling, D. R.

    2017-12-01

    The NASA CERES project continues to provide the scientific communities a wide variety of satellite-derived data products such as observed TOA broadband shortwave and longwave observed fluxes, computed TOA and Surface fluxes, as well as cloud, aerosol, and other atmospheric parameters. They encompass a wide range of temporal and spatial resolutions, suited to specific applications. CERES data is used mostly by climate modeling communities but also by a wide variety of educational institutions. To better serve our users, a web-based Ordering and Visualization Tool (OVT) was developed by using Opens Source Software such as Eclipse, java, javascript, OpenLayer, Flot, Google Maps, python, and others. Due to increased demand by our own scientists, we also implemented a series of specialized functions to be used in the process of CERES Data Quality Control (QC) such as 1- and 2-D histograms, anomalies and differences, temporal and spatial averaging, side-by-side parameter comparison, and others that made the process of QC far easier and faster, but more importantly far more portable. With the integration of ground site observed surface fluxes we further facilitate the CERES project to QC the CERES computed surface fluxes. An overview of the CERES OVT basic functions using Open Source Software, as well as future steps in expanding its capabilities will be presented at the meeting.

  19. GAViT: Genome Assembly Visualization Tool for Short Read Data

    Energy Technology Data Exchange (ETDEWEB)

    Syed, Aijazuddin; Shapiro, Harris; Tu, Hank; Pangilinan, Jasmyn; Trong, Stephan

    2008-03-14

    It is a challenging job for genome analysts to accurately debug, troubleshoot, and validate genome assembly results. Genome analysts rely on visualization tools to help validate and troubleshoot assembly results, including such problems as mis-assemblies, low-quality regions, and repeats. Short read data adds further complexity and makes it extremely challenging for the visualization tools to scale and to view all needed assembly information. As a result, there is a need for a visualization tool that can scale to display assembly data from the new sequencing technologies. We present Genome Assembly Visualization Tool (GAViT), a highly scalable and interactive assembly visualization tool developed at the DOE Joint Genome Institute (JGI).

  20. KENO3D Visualization Tool for KENO V.a and KENO-VI Geometry Models

    International Nuclear Information System (INIS)

    Horwedel, J.E.; Bowman, S.M.

    2000-01-01

    Criticality safety analyses often require detailed modeling of complex geometries. Effective visualization tools can enhance checking the accuracy of these models. This report describes the KENO3D visualization tool developed at the Oak Ridge National Laboratory (ORNL) to provide visualization of KENO V.a and KENO-VI criticality safety models. The development of KENO3D is part of the current efforts to enhance the SCALE (Standardized Computer Analyses for Licensing Evaluations) computer software system

  1. Virtual Reality: A Tool for Cartographic Visualization | Quaye-Ballard ...

    African Journals Online (AJOL)

    Visualization methods in the analysis of geographical datasets are based on static models, which restrict the visual analysis capabilities. The use of virtual reality, which is a three-dimensional (3D) perspective, gives the user the ability to change viewpoints and models dynamically overcomes the static limitations of ...

  2. Users’ perception of visual aesthetics and usefulness of a web-based educational tool

    OpenAIRE

    Sánchez Franco, Manuel Jesús; Villarejo Ramos, Ángel Francisco; Peral Peral, Begoña; Buitrago Esquinas, Eva María; Roldán Salgueiro, José Luis

    2013-01-01

    As a result of our research we have become increasingly aware of the relevance of visual design in understanding learners’ attitudes towards the use of virtual tools. Likewise, perceived usefulness is an essential antecedent of the cumulative impressions of, and preferences for, such tools. Therefore, the aim of this study is to investigate the main effects of visual design and usefulness on learning and productivity in the domain of web-based educational tools. Structural Equation M...

  3. Dynamic visualizations as tools for supporting cosmological literacy

    Science.gov (United States)

    Buck, Zoe Elizabeth

    My dissertation research is designed to improve access to STEM content through the development of cosmology visualizations that support all learners as they engage in cosmological sense-making. To better understand how to design visualizations that work toward breaking cycles of power and access in the sciences, I orient my work to following "meta-question": How might educators use visualizations to support diverse ways of knowing and learning in order to expand access to cosmology, and to science? In this dissertation, I address this meta-question from a pragmatic epistemological perspective, through a sociocultural lens, following three lines of inquiry: experimental methods (Creswell, 2003) with a focus on basic visualization design, activity analysis (Wells, 1996; Ash, 2001; Rahm, 2012) with a focus on culturally and linguistically diverse learners, and case study (Creswell, 2000) with a focus on expansive learning at a planetarium (Engestrom, 2001; Ash, 2014). My research questions are as follows, each of which corresponds to a self contained course of inquiry with its own design, data, analysis and results: 1) Can mediational cues like color affect the way learners interpret the content in a cosmology visualization? 2) How do cosmology visualizations support cosmological sense-making for diverse students? 3) What are the shared objects of dynamic networks of activity around visualization production and use in a large, urban planetarium and how do they affect learning? The result is a mixed-methods design (Sweetman, Badiee & Creswell, 2010) where both qualitative and quantitative data are used when appropriate to address my research goals. In the introduction I begin by establishing a theoretical framework for understanding visualizations within cultural historical activity theory (CHAT) and situating the chapters that follow within that framework. I also introduce the concept of cosmological literacy, which I define as the set of conceptual, semiotic and

  4. VITA-6.2: Advanced visual tool for information management

    International Nuclear Information System (INIS)

    Jacobson, Z.; Truong, Q.S.; Houston, B.; Taylor, V.; Herber, N.; El Gebaly, A.

    2007-01-01

    Visual Interface for Text Analysis (VITA), our combined user interface and meta-search engine software application, improves the quality and speed at which intelligence analysts can explore novel massive text corpora via innovations that facilitate user contextual awareness. (author)

  5. Abstractocyte: A Visual Tool for Exploring Nanoscale Astroglial Cells

    KAUST Repository

    Mohammed, Haneen

    2017-01-01

    This thesis presents the design and implementation of Abstractocyte, a system for the visual analysis of astrocytes, and their relation to neurons, in nanoscale volumes of brain tissue. Astrocytes are glial cells, i.e., non-neuronal cells

  6. AR4VI: AR as an Accessibility Tool for People with Visual Impairments

    OpenAIRE

    Coughlan, James M.; Miele, Joshua

    2017-01-01

    Although AR technology has been largely dominated by visual media, a number of AR tools using both visual and auditory feedback have been developed specifically to assist people with low vision or blindness – an application domain that we term Augmented Reality for Visual Impairment (AR4VI). We describe two AR4VI tools developed at Smith-Kettlewell, as well as a number of pre-existing examples. We emphasize that AR4VI is a powerful tool with the potential to remove or significantly reduce a r...

  7. Abstractocyte: A Visual Tool for Exploring Nanoscale Astroglial Cells

    KAUST Repository

    Mohammed, Haneen

    2017-06-12

    This thesis presents the design and implementation of Abstractocyte, a system for the visual analysis of astrocytes, and their relation to neurons, in nanoscale volumes of brain tissue. Astrocytes are glial cells, i.e., non-neuronal cells that support neurons and the nervous system. Even though glial cells make up around 50 percent of all cells in the mammalian brain, so far they have been far less studied than neurons. Nevertheless, the study of astrocytes has immense potential for understanding brain function. However, the complex and widely-branching structure of astrocytes requires high-resolution electron microscopy imaging and makes visualization and analysis challenging. Using Abstractocyte, biologists can explore the morphology of astrocytes at various visual abstraction levels, while simultaneously analyzing neighboring neurons and their connectivity. We define a novel, conceptual 2D abstraction space for jointly visualizing astrocytes and neurons. Neuroscientists can choose a joint visualization as a specific point in that 2D abstraction space. Dragging this point allows them to smoothly transition between different abstraction levels in an intuitive manner. We describe the design of Abstractocyte, and present three case studies in which neuroscientists have successfully used our system to assess astrocytic coverage of synapses, glycogen distribution in relation to synapses, and astrocytic-mitochondria coverage.

  8. Visualization and analytics tools for infectious disease epidemiology: a systematic review.

    Science.gov (United States)

    Carroll, Lauren N; Au, Alan P; Detwiler, Landon Todd; Fu, Tsung-Chieh; Painter, Ian S; Abernethy, Neil F

    2014-10-01

    A myriad of new tools and algorithms have been developed to help public health professionals analyze and visualize the complex data used in infectious disease control. To better understand approaches to meet these users' information needs, we conducted a systematic literature review focused on the landscape of infectious disease visualization tools for public health professionals, with a special emphasis on geographic information systems (GIS), molecular epidemiology, and social network analysis. The objectives of this review are to: (1) identify public health user needs and preferences for infectious disease information visualization tools; (2) identify existing infectious disease information visualization tools and characterize their architecture and features; (3) identify commonalities among approaches applied to different data types; and (4) describe tool usability evaluation efforts and barriers to the adoption of such tools. We identified articles published in English from January 1, 1980 to June 30, 2013 from five bibliographic databases. Articles with a primary focus on infectious disease visualization tools, needs of public health users, or usability of information visualizations were included in the review. A total of 88 articles met our inclusion criteria. Users were found to have diverse needs, preferences and uses for infectious disease visualization tools, and the existing tools are correspondingly diverse. The architecture of the tools was inconsistently described, and few tools in the review discussed the incorporation of usability studies or plans for dissemination. Many studies identified concerns regarding data sharing, confidentiality and quality. Existing tools offer a range of features and functions that allow users to explore, analyze, and visualize their data, but the tools are often for siloed applications. Commonly cited barriers to widespread adoption included lack of organizational support, access issues, and misconceptions about tool

  9. Video games as a tool to train visual skills.

    Science.gov (United States)

    Achtman, R L; Green, C S; Bavelier, D

    2008-01-01

    Adult brain plasticity, although possible, is often difficult to elicit. Training regimens in adults can produce specific improvements on the trained task without leading to general enhancements that would improve quality of life. This paper considers the case of playing action video games as a way to induce widespread enhancement in vision. We review the range of visual skills altered by action video game playing as well as the game components important in promoting visual plasticity. Further, we discuss what these results might mean in terms of rehabilitation for different patient populations.

  10. Video games as a tool to train visual skills

    Science.gov (United States)

    Achtman, R.L.; Green, C.S.; Bavelier, D.

    2010-01-01

    Purpose Adult brain plasticity, although possible, is often difficult to elicit. Training regimens in adults can produce specific improvements on the trained task without leading to general enhancements that would improve quality of life. This paper considers the case of playing action video games as a way to induce widespread enhancement in vision. Conclusions We review the range of visual skills altered by action video game playing as well as the game components important in promoting visual plasticity. Further, we discuss what these results might mean in terms of rehabilitation for different patient populations. PMID:18997318

  11. Visualizing data mining results with the Brede tools

    DEFF Research Database (Denmark)

    Nielsen, Finn Årup

    2009-01-01

    has expanded and now includes its own database with coordinates along with ontologies for brain regions and functions: The Brede Database. With Brede Toolbox and Database combined we setup automated workflows for extraction of data, mass meta-analytic data mining and visualizations. Most of the Web......A few neuroinformatics databases now exist that record results from neuroimaging studies in the form of brain coordinates in stereotaxic space. The Brede Toolbox was originally developed to extract, analyze and visualize data from one of them --- the BrainMap database. Since then the Brede Toolbox...

  12. Computer-Assisted Visual Search/Decision Aids as a Training Tool for Mammography

    National Research Council Canada - National Science Library

    Nodine, Calvin

    2000-01-01

    The primary goal of the project is to develop a computer-assisted visual search (CAVS) mammography training tool that will improve the perceptual and cognitive skills of trainees leading to mammographic expertise...

  13. Computer-Assisted Visual Search/Decision Aids as a Training Tool for Mammography

    National Research Council Canada - National Science Library

    Nodine, Calvin

    1999-01-01

    The primary goal of the project is to develop a computer-assisted visual search (CAVS) mammography training tool that will improve the perceptual and cognitive skills of trainees leading to mammographic expertise...

  14. Computer-Assisted Visual Search/Decision Aids as a Training Tool for Mammography

    National Research Council Canada - National Science Library

    Nodine, Calvin

    1998-01-01

    The primary goal of the project is to develop a computer-assisted visual search (CAVS) mammography training tool that will improve the perceptual and cognitive skills of trainees leading to mammographic expertise...

  15. Development of software tools for 4-D visualization and quantitative analysis of PHITS simulation results

    International Nuclear Information System (INIS)

    Furutaka, Kazuyoshi

    2015-02-01

    A suite of software tools has been developed to facilitate the development of apparatus using a radiation transport simulation code PHITS by enabling 4D visualization (3D space and time) and quantitative analysis of so-called dieaway plots. To deliver useable tools as soon as possible, the existing software was utilized as much as possible; ParaView will be used for the 4D visualization of the results, whereas the analyses of dieaway plots will be done with ROOT toolkit with a tool named “diana”. To enable 4D visualization using ParaView, a group of tools (angel2vtk, DispDCAS1, CamPos) has been developed for the conversion of the data format to the one which can be read from ParaView and to ease the visualization. (author)

  16. iVCJ: A tool for Interactive Visualization of high explosives CJ states

    Energy Technology Data Exchange (ETDEWEB)

    Wooten, Hasani Omar [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Aslam, Tariq Dennis [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Whitley, Von Howard [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)

    2016-12-12

    A graphical user interface (GUI) tool has been developed that facilitates the visualization and analysis of the Chapman-Jouguet state for high explosives gaseous products using the Jones- Wilkins-Lee equation of state.

  17. VCS: Tool for Visualizing Copy Number Variation and Single Nucleotide Polymorphism

    Directory of Open Access Journals (Sweden)

    HyoYoung Kim

    2014-12-01

    Full Text Available Copy number variation (CNV or single nucleotide phlyorphism (SNP is useful genetic resource to aid in understanding complex phenotypes or deseases susceptibility. Although thousands of CNVs and SNPs are currently avaliable in the public databases, they are somewhat difficult to use for analyses without visualization tools. We developed a web-based tool called the VCS (visualization of CNV or SNP to visualize the CNV or SNP detected. The VCS tool can assist to easily interpret a biological meaning from the numerical value of CNV and SNP. The VCS provides six visualization tools: i the enrichment of genome contents in CNV; ii the physical distribution of CNV or SNP on chromosomes; iii the distribution of log2 ratio of CNVs with criteria of interested; iv the number of CNV or SNP per binning unit; v the distribution of homozygosity of SNP genotype; and vi cytomap of genes within CNV or SNP region.

  18. System Sketch: A Visualization Tool to Improve Community Decision Making

    Science.gov (United States)

    Making decisions in coastal and estuarine management requires a comprehensive understanding of the linkages between environmental, social, and economic systems. SystemSketch is a web-based scoping tool designed to assist resource managers in characterizing their systems, explorin...

  19. Users’ perception of visual design and usefulness of a web-based educational tool

    OpenAIRE

    Sánchez Franco, Manuel Jesús; Villarejo Ramos, Ángel Francisco; Peral Peral, Begoña; Buitrago Esquinas, Eva María; Roldán Salgueiro, José Luis

    2012-01-01

    Our research has become increasingly aware of the relevance of visual design in understanding learners’ attitudes towards the use of virtual tools. Likewise, perceived usefulness is an essential antecedent of the cumulative impressions of and preferences for them. Therefore, the aim of this study is to investigate the main effects of visual design and usefulness on learning and productivity in the domain of web-based educational tools. A Structural Equation Modelling, specifically Partial Lea...

  20. From a Gloss to a Learning Tool: Does Visual Aids Enhance Better Sentence Comprehension?

    Science.gov (United States)

    Sato, Takeshi; Suzuki, Akio

    2012-01-01

    The aim of this study is to optimize CALL environments as a learning tool rather than a gloss, focusing on the learning of polysemous words which refer to spatial relationship between objects. A lot of research has already been conducted to examine the efficacy of visual glosses while reading L2 texts and has reported that visual glosses can be…

  1. Procedures and Tools Used by Teachers When Completing Functional Vision Assessments with Children with Visual Impairments

    Science.gov (United States)

    Kaiser, Justin T.; Herzberg, Tina S.

    2017-01-01

    Introduction: This study analyzed survey responses from 314 teachers of students with visual impairments regarding the tools and procedures used in completing functional vision assessments (FVAs). Methods: Teachers of students with visual impairments in the United States and Canada completed an online survey during spring 2016. Results: The…

  2. Consensus Coding as a Tool in Visual Appearance Research

    Directory of Open Access Journals (Sweden)

    D R Simmons

    2011-04-01

    Full Text Available A common problem in visual appearance research is how to quantitatively characterise the visual appearance of a region of an image which is categorised by human observers in the same way. An example of this is scarring in medical images (Ayoub et al, 2010, The Cleft-Palate Craniofacial Journal, in press. We have argued that “scarriness” is itself a visual appearance descriptor which summarises the distinctive combination of colour, texture and shape information which allows us to distinguish scarred from non-scarred tissue (Simmons et al, ECVP 2009. Other potential descriptors for other image classes would be “metallic”, “natural”, or “liquid”. Having developed an automatic algorithm to locate scars in medical images, we then tested “ground truth” by asking untrained observers to draw around the region of scarring. The shape and size of the scar on the image was defined by building a contour plot of the agreement between observers' outlines and thresholding at the point above which 50% of the observers agreed: a consensus coding scheme. Based on the variability in the amount of overlap between the scar as defined by the algorithm, and the consensus scar of the observers, we have concluded that the algorithm does not completely capture the putative appearance descriptor “scarriness”. A simultaneous analysis of qualitative descriptions of the scarring by the observers revealed that other image features than those encoded by the algorithm (colour and texture might be important, such as scar boundary shape. This approach to visual appearance research in medical imaging has potential applications in other application areas, such as botany, geology and archaeology.

  3. Visual tools and languages: Directions for the '90s

    Energy Technology Data Exchange (ETDEWEB)

    Glinert, E.P. (Rensselaer Polytechnic Inst., Troy, NY (United States). Dept. of Computer Science); Blattner, M.M. (Lawrence Livermore National Lab., CA (United States)); Frerking, C.J. (California Univ., Davis, CA (United States))

    1991-01-01

    We identify and discuss three domains where we believe that innovative application of visual programming languages is likely to make a significant impact in the near term: concurrent computing, computer-based assistance for people with disabilities, and the multimedia/multimodal environments of tomorrow in which it will be possible to hear and physically interact with information as well as see it. 33 refs., 3 figs.

  4. Visual tools and languages: Directions for the '90s

    International Nuclear Information System (INIS)

    Glinert, E.P.; Frerking, C.J.

    1991-01-01

    We identify and discuss three domains where we believe that innovative application of visual programming languages is likely to make a significant impact in the near term: concurrent computing, computer-based assistance for people with disabilities, and the multimedia/multimodal environments of tomorrow in which it will be possible to hear and physically interact with information as well as see it. 33 refs., 3 figs

  5. The Tools, Approaches and Applications of Visual Literacy in the Visual Arts Department of Cross River University of Technology, Calabar, Nigeria

    Science.gov (United States)

    Ecoma, Victor

    2016-01-01

    The paper reflects upon the tools, approaches and applications of visual literacy in the Visual Arts Department of Cross River University of Technology, Calabar, Nigeria. The objective of the discourse is to examine how the visual arts training and practice equip students with skills in visual literacy through methods of production, materials and…

  6. Writing in the air: A visualization tool for written languages.

    Directory of Open Access Journals (Sweden)

    Yoshihiro Itaguchi

    Full Text Available The present study investigated interactions between cognitive processes and finger actions called "kusho," meaning "air-writing" in Japanese. Kanji-culture individuals often employ kusho behavior in which they move their fingers as a substitute for a pen to write mostly done when they are trying to recall the shape of a Kanji character or the spelling of an English word. To further examine the visualization role of kusho behavior on cognitive processing, we conducted a Kanji construction task in which a stimulus (i.e., sub-parts to be constructed was simultaneously presented. In addition, we conducted a Kanji vocabulary test to reveal the relation between the kusho benefit and vocabulary size. The experiment provided two sets of novel findings. First, executing kusho behavior improved task performance (correct responses as long as the participants watched their finger movements while solving the task. This result supports the idea that visual feedback of kusho behavior helps cognitive processing for the task. Second, task performance was positively correlated with the vocabulary score when stimuli were presented for a relatively long time, whereas the kusho benefits and vocabulary score were not correlated regardless of stimulus-presentation time. These results imply that a longer stimulus-presentation could allow participants to utilize their lexical resources for solving the task. The current findings together support the visualization role of kusho behavior, adding experimental evidence supporting the view that there are interactions between cognition and motor behavior.

  7. Three-D Google Earth bases geospatial visualization tool for the smart grid distribution

    Energy Technology Data Exchange (ETDEWEB)

    Kumar, K. [Enterprise Horizons, Fremont, CA (United States)

    2009-07-01

    Smart grids can be used to liberalize markets, ensure reliability and reduce the environmental footprint of electric utilities. This presentation discussed a geo-spatial visualization tool for smart grid distribution. The visualization tool can be used to visualize transmission lines, substations, and is capable of viewing millions of topographical components. The tool was designed to track and monitor the health of assets and to increase awareness of vulnerabilities, vegetation, and regional demographics. The tool is also capable of identifying potential issues before a rolling blackout situation as well as anticipating islanding spike events. The visualization tool can be segmented by population and industrial belts, and is able to provide diagnostics on power factor turbulence for congestion bottlenecks. When used for transmission line and substation siting, the tool can provide terrain feasibility analyses and environmental impact analyses. Weather-based demand forecasting can be used to determine critical customers impacted by potential outages. CAD drawings can be used to visualize assets in virtual reality and can be linked to consumer indexing and smart metering initiatives. It was concluded that the web-based tool can also be used for workforce and dispatch management. tabs., figs.

  8. Visual Temporal Logic as a Rapid Prototying Tool

    DEFF Research Database (Denmark)

    Fränzle, Martin; Lüth, Karsten

    2001-01-01

    Within this survey article, we explain real-time symbolic timing diagrams and the ICOS tool-box supporting timing-diagram-based requirements capture and rapid prototyping. Real-time symbolic timing diagrams are a full-fledged metric-time temporal logic, but with a graphical syntax reminiscent...... of the informal timing diagrams widely used in electrical engineering. ICOS integrates a variety of tools, ranging from graphical specification editors over tautology checking and counterexample generation to code generators emitting C or VHDL, thus bridging the gap from formal specification to rapid prototype...

  9. MATH: A Scientific Tool for Numerical Methods Calculation and Visualization

    Directory of Open Access Journals (Sweden)

    Henrich Glaser-Opitz

    2016-02-01

    Full Text Available MATH is an easy to use application for various numerical methods calculations with graphical user interface and integrated plotting tool written in Qt with extensive use of Qwt library for plotting options and use of Gsl and MuParser libraries as a numerical and parser helping libraries. It can be found at http://sourceforge.net/projects/nummath. MATH is a convenient tool for use in education process because of its capability of showing every important step in solution process to better understand how it is done. MATH also enables fast comparison of similar method speed and precision.

  10. JVM: Java Visual Mapping tool for next generation sequencing read.

    Science.gov (United States)

    Yang, Ye; Liu, Juan

    2015-01-01

    We developed a program JVM (Java Visual Mapping) for mapping next generation sequencing read to reference sequence. The program is implemented in Java and is designed to deal with millions of short read generated by sequence alignment using the Illumina sequencing technology. It employs seed index strategy and octal encoding operations for sequence alignments. JVM is useful for DNA-Seq, RNA-Seq when dealing with single-end resequencing. JVM is a desktop application, which supports reads capacity from 1 MB to 10 GB.

  11. AR4VI: AR as an Accessibility Tool for People with Visual Impairments.

    Science.gov (United States)

    Coughlan, James M; Miele, Joshua

    2017-10-01

    Although AR technology has been largely dominated by visual media, a number of AR tools using both visual and auditory feedback have been developed specifically to assist people with low vision or blindness - an application domain that we term Augmented Reality for Visual Impairment (AR4VI). We describe two AR4VI tools developed at Smith-Kettlewell, as well as a number of pre-existing examples. We emphasize that AR4VI is a powerful tool with the potential to remove or significantly reduce a range of accessibility barriers. Rather than being restricted to use by people with visual impairments, AR4VI is a compelling universal design approach offering benefits for mainstream applications as well.

  12. Experimental Evaluation of Electric Power Grid Visualization Tools in the EIOC

    Energy Technology Data Exchange (ETDEWEB)

    Greitzer, Frank L.; Dauenhauer, Peter M.; Wierks, Tamara G.; Podmore, Robin; Dalton, Angela C.

    2009-12-01

    The present study follows an initial human factors evaluation of four electric power grid visualization tools and reports on an empirical evaluation of two of the four tools: Graphical Contingency Analysis, and Phasor State Estimator. The evaluation was conducted within specific experimental studies designed to measure the impact on decision making performance.

  13. The DiaCog: A Prototype Tool for Visualizing Online Dialog Games' Interactions

    Science.gov (United States)

    Yengin, Ilker; Lazarevic, Bojan

    2014-01-01

    This paper proposes and explains the design of a prototype learning tool named the DiaCog. The DiaCog visualizes dialog interactions within an online dialog game by using dynamically created cognitive maps. As a purposefully designed tool for enhancing learning effectiveness the DiaCog might be applicable to dialogs at discussion boards within a…

  14. VarB Plus: An Integrated Tool for Visualization of Genome Variation Datasets

    KAUST Repository

    Hidayah, Lailatul

    2012-07-01

    Research on genomic sequences has been improving significantly as more advanced technology for sequencing has been developed. This opens enormous opportunities for sequence analysis. Various analytical tools have been built for purposes such as sequence assembly, read alignments, genome browsing, comparative genomics, and visualization. From the visualization perspective, there is an increasing trend towards use of large-scale computation. However, more than power is required to produce an informative image. This is a challenge that we address by providing several ways of representing biological data in order to advance the inference endeavors of biologists. This thesis focuses on visualization of variations found in genomic sequences. We develop several visualization functions and embed them in an existing variation visualization tool as extensions. The tool we improved is named VarB, hence the nomenclature for our enhancement is VarB Plus. To the best of our knowledge, besides VarB, there is no tool that provides the capability of dynamic visualization of genome variation datasets as well as statistical analysis. Dynamic visualization allows users to toggle different parameters on and off and see the results on the fly. The statistical analysis includes Fixation Index, Relative Variant Density, and Tajima’s D. Hence we focused our efforts on this tool. The scope of our work includes plots of per-base genome coverage, Principal Coordinate Analysis (PCoA), integration with a read alignment viewer named LookSeq, and visualization of geo-biological data. In addition to description of embedded functionalities, significance, and limitations, future improvements are discussed. The result is four extensions embedded successfully in the original tool, which is built on the Qt framework in C++. Hence it is portable to numerous platforms. Our extensions have shown acceptable execution time in a beta testing with various high-volume published datasets, as well as positive

  15. Development and Evaluation of Secure Socket Layer Visualization Tool with Packet Capturing Function

    Directory of Open Access Journals (Sweden)

    Arai Masayuki

    2015-01-01

    Full Text Available Secure Socket Layer (SSL has become a fundamental technology that secures browser-processed personal details sent to the server. As a result, communication and computer engineers are advised to learn the protocol. However, understanding SSL is very difficult because of its intricate communication procedure. To solve this problem, we developed a visualization tool for understanding SSL. This paper describes the design, implementation methods, and evaluation of the tool. The evaluation results show that the visualization tool is effective for learning SSL.

  16. Exploration of Metagenome Assemblies with an Interactive Visualization Tool

    Energy Technology Data Exchange (ETDEWEB)

    Cantor, Michael; Nordberg, Henrik; Smirnova, Tatyana; Andersen, Evan; Tringe, Susannah; Hess, Matthias; Dubchak, Inna

    2014-07-09

    Metagenomics, one of the fastest growing areas of modern genomic science, is the genetic profiling of the entire community of microbial organisms present in an environmental sample. Elviz is a web-based tool for the interactive exploration of metagenome assemblies. Elviz can be used with publicly available data sets from the Joint Genome Institute or with custom user-loaded assemblies. Elviz is available at genome.jgi.doe.gov/viz

  17. Property Integration: Componentless Design Techniques and Visualization Tools

    DEFF Research Database (Denmark)

    El-Halwagi, Mahmoud M; Glasgow, I.M.; Eden, Mario Richard

    2004-01-01

    integration is defined as a functionality-based, holistic approach to the allocation and manipulation of streams and processing units, which is based on tracking, adjusting, assigning, and matching functionalities throughout the process. Revised lever arm rules are devised to allow optimal allocation while...... maintaining intra- and interstream conservation of the property-based clusters. The property integration problem is mapped into the cluster domain. This dual problem is solved in terms of clusters and then mapped to the primal problem in the property domain. Several new rules are derived for graphical...... techniques. Particularly, systematic rules and visualization techniques for the identification of optimal mixing of streams and their allocation to units. Furthermore, a derivation of the correspondence between clustering arms and fractional contribution of streams is presented. This correspondence...

  18. Transcript structure and domain display: a customizable transcript visualization tool.

    Science.gov (United States)

    Watanabe, Kenneth A; Ma, Kaiwang; Homayouni, Arielle; Rushton, Paul J; Shen, Qingxi J

    2016-07-01

    Transcript Structure and Domain Display (TSDD) is a publicly available, web-based program that provides publication quality images of transcript structures and domains. TSDD is capable of producing transcript structures from GFF/GFF3 and BED files. Alternatively, the GFF files of several model organisms have been pre-loaded so that users only needs to enter the locus IDs of the transcripts to be displayed. Visualization of transcripts provides many benefits to researchers, ranging from evolutionary analysis of DNA-binding domains to predictive function modeling. TSDD is freely available for non-commercial users at http://shenlab.sols.unlv.edu/shenlab/software/TSD/transcript_display.html : jeffery.shen@unlv.nevada.edu. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

  19. Do Bedside Visual Tools Improve Patient and Caregiver Satisfaction? A Systematic Review of the Literature.

    Science.gov (United States)

    Goyal, Anupama A; Tur, Komalpreet; Mann, Jason; Townsend, Whitney; Flanders, Scott A; Chopra, Vineet

    2017-11-01

    Although common, the impact of low-cost bedside visual tools, such as whiteboards, on patient care is unclear. To systematically review the literature and assess the influence of bedside visual tools on patient satisfaction. Medline, Embase, SCOPUS, Web of Science, CINAHL, and CENTRAL. Studies of adult or pediatric hospitalized patients reporting physician identification, understanding of provider roles, patient-provider communication, and satisfaction with care from the use of visual tools were included. Outcomes were categorized as positive, negative, or neutral based on survey responses for identification, communication, and satisfaction. Two reviewers screened studies, extracted data, and assessed the risk of study bias. Sixteen studies met the inclusion criteria. Visual tools included whiteboards (n = 4), physician pictures (n = 7), whiteboard and picture (n = 1), electronic medical record-based patient portals (n = 3), and formatted notepads (n = 1). Tools improved patients' identification of providers (13/13 studies). The impact on understanding the providers' roles was largely positive (8/10 studies). Visual tools improved patient-provider communication (4/5 studies) and satisfaction (6/8 studies). In adults, satisfaction varied between positive with the use of whiteboards (2/5 studies) and neutral with pictures (1/5 studies). Satisfaction related to pictures in pediatric patients was either positive (1/3 studies) or neutral (1/3 studies). Differences in tool format (individual pictures vs handouts with pictures of all providers) and study design (randomized vs cohort) may explain variable outcomes. The use of bedside visual tools appears to improve patient recognition of providers and patient-provider communication. Future studies that include better design and outcome assessment are necessary before widespread use can be recommended. © 2017 Society of Hospital Medicine

  20. Interactive Data Visualization for HIV Cohorts: Leveraging Data Exchange Standards to Share and Reuse Research Tools.

    Directory of Open Access Journals (Sweden)

    Meridith Blevins

    Full Text Available To develop and disseminate tools for interactive visualization of HIV cohort data.If a picture is worth a thousand words, then an interactive video, composed of a long string of pictures, can produce an even richer presentation of HIV population dynamics. We developed an HIV cohort data visualization tool using open-source software (R statistical language. The tool requires that the data structure conform to the HIV Cohort Data Exchange Protocol (HICDEP, and our implementation utilized Caribbean, Central and South America network (CCASAnet data.This tool currently presents patient-level data in three classes of plots: (1 Longitudinal plots showing changes in measurements viewed alongside event probability curves allowing for simultaneous inspection of outcomes by relevant patient classes. (2 Bubble plots showing changes in indicators over time allowing for observation of group level dynamics. (3 Heat maps of levels of indicators changing over time allowing for observation of spatial-temporal dynamics. Examples of each class of plot are given using CCASAnet data investigating trends in CD4 count and AIDS at antiretroviral therapy (ART initiation, CD4 trajectories after ART initiation, and mortality.We invite researchers interested in this data visualization effort to use these tools and to suggest new classes of data visualization. We aim to contribute additional shareable tools in the spirit of open scientific collaboration and hope that these tools further the participation in open data standards like HICDEP by the HIV research community.

  1. A Virtual Reality Visualization Tool for Neuron Tracing.

    Science.gov (United States)

    Usher, Will; Klacansky, Pavol; Federer, Frederick; Bremer, Peer-Timo; Knoll, Aaron; Yarch, Jeff; Angelucci, Alessandra; Pascucci, Valerio

    2018-01-01

    Tracing neurons in large-scale microscopy data is crucial to establishing a wiring diagram of the brain, which is needed to understand how neural circuits in the brain process information and generate behavior. Automatic techniques often fail for large and complex datasets, and connectomics researchers may spend weeks or months manually tracing neurons using 2D image stacks. We present a design study of a new virtual reality (VR) system, developed in collaboration with trained neuroanatomists, to trace neurons in microscope scans of the visual cortex of primates. We hypothesize that using consumer-grade VR technology to interact with neurons directly in 3D will help neuroscientists better resolve complex cases and enable them to trace neurons faster and with less physical and mental strain. We discuss both the design process and technical challenges in developing an interactive system to navigate and manipulate terabyte-sized image volumes in VR. Using a number of different datasets, we demonstrate that, compared to widely used commercial software, consumer-grade VR presents a promising alternative for scientists.

  2. Visual Impairment/lntracranial Pressure Risk Clinical Care Data Tools

    Science.gov (United States)

    Van Baalen, Mary; Mason, Sara S.; Taiym, Wafa; Wear, Mary L.; Moynihan, Shannan; Alexander, David; Hart, Steve; Tarver, William

    2014-01-01

    Prior to 2010, several ISS crewmembers returned from spaceflight with changes to their vision, ranging from a mild hyperopic shift to frank disc edema. As a result, NASA expanded clinical vision testing to include more comprehensive medical imaging, including Optical Coherence Tomography and 3 Tesla Brain and Orbit MRIs. The Space and Clinical Operations (SCO) Division developed a clinical practice guideline that classified individuals based on their symptoms and diagnoses to facilitate clinical care. For the purposes of clinical surveillance, this classification was applied retrospectively to all crewmembers who had sufficient testing for classification. This classification is also a tool that has been leveraged for researchers to identify potential risk factors. In March 2014, driven in part by a more comprehensive understanding of the imaging data and increased imaging capability on orbit, the SCO Division revised their clinical care guidance to outline in-flight care and increase post-flight follow up. The new clinical guidance does not include a classification scheme

  3. Experiences of graduate students: Using Cabri as a visualization tool in math education

    Directory of Open Access Journals (Sweden)

    Çiğdem Gül

    2014-12-01

    Full Text Available Through the use of graphic calculators and dynamic software running on computers and mobile devices, students can learn complex algebraic concepts. The purpose of this study is to investigate the experiences of graduate students using Cabri as a visualization tool in math education. The qualitative case study was used in this study. Five students from graduate students studying at the non-thesis math program of a university located in the Blacksea region were the participant of the study. As a dynamic learning tool, Cabri provided participants an environment where participants visually discovered the geometry. It was concluded that dynamic learning tools like Cabri has a huge potential for teaching visually the challenging concepts that students struggle to image. Further research should investigate the potential plans for integrating the use of dynamic learning software into the math curriculum

  4. Visual Representation in GENESIS as a tool for Physical Modeling, Sound Synthesis and Musical Composition

    OpenAIRE

    Villeneuve, Jérôme; Cadoz, Claude; Castagné, Nicolas

    2015-01-01

    The motivation of this paper is to highlight the importance of visual representations for artists when modeling and simulating mass-interaction physical networks in the context of sound synthesis and musical composition. GENESIS is a musician-oriented software environment for sound synthesis and musical composition. However, despite this orientation, a substantial amount of effort has been put into building a rich variety of tools based on static or dynamic visual representations of models an...

  5. Applying Dataflow Architecture and Visualization Tools to In Vitro Pharmacology Data Automation.

    Science.gov (United States)

    Pechter, David; Xu, Serena; Kurtz, Marc; Williams, Steven; Sonatore, Lisa; Villafania, Artjohn; Agrawal, Sony

    2016-12-01

    The pace and complexity of modern drug discovery places ever-increasing demands on scientists for data analysis and interpretation. Data flow programming and modern visualization tools address these demands directly. Three different requirements-one for allosteric modulator analysis, one for a specialized clotting analysis, and one for enzyme global progress curve analysis-are reviewed, and their execution in a combined data flow/visualization environment is outlined. © 2016 Society for Laboratory Automation and Screening.

  6. An open source GIS tool to quantify the visual impact of wind turbines and photovoltaic panels

    International Nuclear Information System (INIS)

    Minelli, Annalisa; Marchesini, Ivan; Taylor, Faith E.; De Rosa, Pierluigi; Casagrande, Luca; Cenci, Michele

    2014-01-01

    Although there are clear economic and environmental incentives for producing energy from solar and wind power, there can be local opposition to their installation due to their impact upon the landscape. To date, no international guidelines exist to guide quantitative visual impact assessment of these facilities, making the planning process somewhat subjective. In this paper we demonstrate the development of a method and an Open Source GIS tool to quantitatively assess the visual impact of these facilities using line-of-site techniques. The methods here build upon previous studies by (i) more accurately representing the shape of energy producing facilities, (ii) taking into account the distortion of the perceived shape and size of facilities caused by the location of the observer, (iii) calculating the possible obscuring of facilities caused by terrain morphology and (iv) allowing the combination of various facilities to more accurately represent the landscape. The tool has been applied to real and synthetic case studies and compared to recently published results from other models, and demonstrates an improvement in accuracy of the calculated visual impact of facilities. The tool is named r.wind.sun and is freely available from GRASS GIS AddOns. - Highlights: • We develop a tool to quantify wind turbine and photovoltaic panel visual impact. • The tool is freely available to download and edit as a module of GRASS GIS. • The tool takes into account visual distortion of the shape and size of objects. • The accuracy of calculation of visual impact is improved over previous methods

  7. An open source GIS tool to quantify the visual impact of wind turbines and photovoltaic panels

    Energy Technology Data Exchange (ETDEWEB)

    Minelli, Annalisa, E-mail: Annalisa.Minelli@univ-brest.fr [Insitute Universitaire Européen de la Mer, Université de la Bretagne Occidentale, Rue Dumont D' Urville, 29280 Plouzané (France); Marchesini, Ivan, E-mail: Ivan.Marchesini@irpi.cnr.it [National Research Council (CNR), Research Insitute for Geo-hydrological Protection (IRPI), Strada della Madonna Alta 126, 06125 Perugia (Italy); Taylor, Faith E., E-mail: Faith.Taylor@kcl.ac.uk [Earth and Environmental Dynamics Research Group, Department of Geography, King' s College London, Strand, London WC2R 2LS (United Kingdom); De Rosa, Pierluigi, E-mail: Pierluigi.Derosa@unipg.it [Physics and Geology Department, University of Perugia, Via Zefferino Faina 4, 06123 Perugia (Italy); Casagrande, Luca, E-mail: Luca.Casagrande@gfosservices.it [Gfosservices S.A., Open Source GIS-WebGIS Solutions, Spatial Data Infrastructures, Planning and Counseling, Via F.lli Cairoli 24, 06127 Perugia (Italy); Cenci, Michele, E-mail: mcenci@regione.umbria.it [Servizio Energia qualità dell' ambiente, rifiuti, attività estrattive, Regione Umbia, Corso Vannucci 96, 06121 Perugia (Italy)

    2014-11-15

    Although there are clear economic and environmental incentives for producing energy from solar and wind power, there can be local opposition to their installation due to their impact upon the landscape. To date, no international guidelines exist to guide quantitative visual impact assessment of these facilities, making the planning process somewhat subjective. In this paper we demonstrate the development of a method and an Open Source GIS tool to quantitatively assess the visual impact of these facilities using line-of-site techniques. The methods here build upon previous studies by (i) more accurately representing the shape of energy producing facilities, (ii) taking into account the distortion of the perceived shape and size of facilities caused by the location of the observer, (iii) calculating the possible obscuring of facilities caused by terrain morphology and (iv) allowing the combination of various facilities to more accurately represent the landscape. The tool has been applied to real and synthetic case studies and compared to recently published results from other models, and demonstrates an improvement in accuracy of the calculated visual impact of facilities. The tool is named r.wind.sun and is freely available from GRASS GIS AddOns. - Highlights: • We develop a tool to quantify wind turbine and photovoltaic panel visual impact. • The tool is freely available to download and edit as a module of GRASS GIS. • The tool takes into account visual distortion of the shape and size of objects. • The accuracy of calculation of visual impact is improved over previous methods.

  8. An interactive visualization tool for multi-channel confocal microscopy data in neurobiology research

    KAUST Repository

    Yong Wan,

    2009-11-01

    Confocal microscopy is widely used in neurobiology for studying the three-dimensional structure of the nervous system. Confocal image data are often multi-channel, with each channel resulting from a different fluorescent dye or fluorescent protein; one channel may have dense data, while another has sparse; and there are often structures at several spatial scales: subneuronal domains, neurons, and large groups of neurons (brain regions). Even qualitative analysis can therefore require visualization using techniques and parameters fine-tuned to a particular dataset. Despite the plethora of volume rendering techniques that have been available for many years, the techniques standardly used in neurobiological research are somewhat rudimentary, such as looking at image slices or maximal intensity projections. Thus there is a real demand from neurobiologists, and biologists in general, for a flexible visualization tool that allows interactive visualization of multi-channel confocal data, with rapid fine-tuning of parameters to reveal the three-dimensional relationships of structures of interest. Together with neurobiologists, we have designed such a tool, choosing visualization methods to suit the characteristics of confocal data and a typical biologist\\'s workflow. We use interactive volume rendering with intuitive settings for multidimensional transfer functions, multiple render modes and multi-views for multi-channel volume data, and embedding of polygon data into volume data for rendering and editing. As an example, we apply this tool to visualize confocal microscopy datasets of the developing zebrafish visual system.

  9. Development of a visual tool to analyze interactions in forums in an e-learning environment

    Directory of Open Access Journals (Sweden)

    Cláudio Filipe Tereso

    2016-12-01

    Full Text Available This article presents VAFAE – Forum Access Visualization on a Distance Learning Environment, a web tool that visually maps Universidade Aberta’s (UAb students’ interaction with a course available on the e-learning platform. Raw data is extracted from the log files that are then transformed to obtain the necessary format. Next, different visualization techniques are applied with the aim of improving and streamlining the underlying information. In a more specific way, VAFAE aims at helping teachers to better understand the level and quality of the interaction of the students with the modules of the learning units in UAb’s distance learning environment.

  10. Gestió de factures electròniques amb .NET (Visual Studio Tools for Office)

    OpenAIRE

    Gimeno Capín, Pablo

    2008-01-01

    Creació d¿un software de gestió de factures electròniques desenvolupat en aquesta plataforma tecnològica, amb indicació expressa d¿utilització de les eines VSTO (Visual Studio Tools for Office) en la seva última versió. Creación de un software de gestión de facturas electrónicas desarrollado en esta plataforma tecnológica, con indicación expresa de utilización de las herramientas VSTO (Visual Studio Tools for Office) en su última versión. Creation of electronic invoice management softwa...

  11. Measurement Tools for the Immersive Visualization Environment: Steps Toward the Virtual Laboratory.

    Science.gov (United States)

    Hagedorn, John G; Dunkers, Joy P; Satterfield, Steven G; Peskin, Adele P; Kelso, John T; Terrill, Judith E

    2007-01-01

    This paper describes a set of tools for performing measurements of objects in a virtual reality based immersive visualization environment. These tools enable the use of the immersive environment as an instrument for extracting quantitative information from data representations that hitherto had be used solely for qualitative examination. We provide, within the virtual environment, ways for the user to analyze and interact with the quantitative data generated. We describe results generated by these methods to obtain dimensional descriptors of tissue engineered medical products. We regard this toolbox as our first step in the implementation of a virtual measurement laboratory within an immersive visualization environment.

  12. A web-based data visualization tool for the MIMIC-II database.

    Science.gov (United States)

    Lee, Joon; Ribey, Evan; Wallace, James R

    2016-02-04

    Although MIMIC-II, a public intensive care database, has been recognized as an invaluable resource for many medical researchers worldwide, becoming a proficient MIMIC-II researcher requires knowledge of SQL programming and an understanding of the MIMIC-II database schema. These are challenging requirements especially for health researchers and clinicians who may have limited computer proficiency. In order to overcome this challenge, our objective was to create an interactive, web-based MIMIC-II data visualization tool that first-time MIMIC-II users can easily use to explore the database. The tool offers two main features: Explore and Compare. The Explore feature enables the user to select a patient cohort within MIMIC-II and visualize the distributions of various administrative, demographic, and clinical variables within the selected cohort. The Compare feature enables the user to select two patient cohorts and visually compare them with respect to a variety of variables. The tool is also helpful to experienced MIMIC-II researchers who can use it to substantially accelerate the cumbersome and time-consuming steps of writing SQL queries and manually visualizing extracted data. Any interested researcher can use the MIMIC-II data visualization tool for free to quickly and conveniently conduct a preliminary investigation on MIMIC-II with a few mouse clicks. Researchers can also use the tool to learn the characteristics of the MIMIC-II patients. Since it is still impossible to conduct multivariable regression inside the tool, future work includes adding analytics capabilities. Also, the next version of the tool will aim to utilize MIMIC-III which contains more data.

  13. A Review of Pathway-Based Analysis Tools That Visualize Genetic Variants

    Directory of Open Access Journals (Sweden)

    Elisa Cirillo

    2017-11-01

    Full Text Available Pathway analysis is a powerful method for data analysis in genomics, most often applied to gene expression analysis. It is also promising for single-nucleotide polymorphism (SNP data analysis, such as genome-wide association study data, because it allows the interpretation of variants with respect to the biological processes in which the affected genes and proteins are involved. Such analyses support an interactive evaluation of the possible effects of variations on function, regulation or interaction of gene products. Current pathway analysis software often does not support data visualization of variants in pathways as an alternate method to interpret genetic association results, and specific statistical methods for pathway analysis of SNP data are not combined with these visualization features. In this review, we first describe the visualization options of the tools that were identified by a literature review, in order to provide insight for improvements in this developing field. Tool evaluation was performed using a computational epistatic dataset of gene–gene interactions for obesity risk. Next, we report the necessity to include in these tools statistical methods designed for the pathway-based analysis with SNP data, expressly aiming to define features for more comprehensive pathway-based analysis tools. We conclude by recognizing that pathway analysis of genetic variations data requires a sophisticated combination of the most useful and informative visual aspects of the various tools evaluated.

  14. Early visual analysis tool using magnetoencephalography for treatment and recovery of neuronal dysfunction.

    Science.gov (United States)

    Rasheed, Waqas; Neoh, Yee Yik; Bin Hamid, Nor Hisham; Reza, Faruque; Idris, Zamzuri; Tang, Tong Boon

    2017-10-01

    Functional neuroimaging modalities play an important role in deciding the diagnosis and course of treatment of neuronal dysfunction and degeneration. This article presents an analytical tool with visualization by exploiting the strengths of the MEG (magnetoencephalographic) neuroimaging technique. The tool automates MEG data import (in tSSS format), channel information extraction, time/frequency decomposition, and circular graph visualization (connectogram) for simple result inspection. For advanced users, the tool also provides magnitude squared coherence (MSC) values allowing personalized threshold levels, and the computation of default model from MEG data of control population. Default model obtained from healthy population data serves as a useful benchmark to diagnose and monitor neuronal recovery during treatment. The proposed tool further provides optional labels with international 10-10 system nomenclature in order to facilitate comparison studies with EEG (electroencephalography) sensor space. Potential applications in epilepsy and traumatic brain injury studies are also discussed. Copyright © 2017 Elsevier Ltd. All rights reserved.

  15. A Survey of Visualization Tools Assessed for Anomaly-Based Intrusion Detection Analysis

    Science.gov (United States)

    2014-04-01

    includes Complex System SCILAB Toolbox, GraphViz, Igraph, NetDraw, Network Workbench, OpenDX, Prefuse, Sci² Tool, and Visualization Toolkit (VTK...Kits’ Capabilities Name Web Sites (all accessed 01/29/2014 Strengths Weaknesses Complex Systems SCILAB Tool http://www.randomfactory.com/openastro...osx/ scilab -info.html Measures graph parameters Academic Free License (AFL); works on UNIX and Windows; programming language is MATLAB; no

  16. Applying open source data visualization tools to standard based medical data.

    Science.gov (United States)

    Kopanitsa, Georgy; Taranik, Maxim

    2014-01-01

    Presentation of medical data in personal health records (PHRs) requires flexible platform independent tools to ensure easy access to the information. Different backgrounds of the patients, especially elder people require simple graphical presentation of the data. Data in PHRs can be collected from heterogeneous sources. Application of standard based medical data allows development of generic visualization methods. Focusing on the deployment of Open Source Tools, in this paper we applied Java Script libraries to create data presentations for standard based medical data.

  17. A Visualization Tool for Integrating Research Results at an Underground Mine

    Science.gov (United States)

    Boltz, S.; Macdonald, B. D.; Orr, T.; Johnson, W.; Benton, D. J.

    2016-12-01

    Researchers with the National Institute for Occupational Safety and Health are conducting research at a deep, underground metal mine in Idaho to develop improvements in ground control technologies that reduce the effects of dynamic loading on mine workings, thereby decreasing the risk to miners. This research is multifaceted and includes: photogrammetry, microseismic monitoring, geotechnical instrumentation, and numerical modeling. When managing research involving such a wide range of data, understanding how the data relate to each other and to the mining activity quickly becomes a daunting task. In an effort to combine this diverse research data into a single, easy-to-use system, a three-dimensional visualization tool was developed. The tool was created using the Unity3d video gaming engine and includes the mine development entries, production stopes, important geologic structures, and user-input research data. The tool provides the user with a first-person, interactive experience where they are able to walk through the mine as well as navigate the rock mass surrounding the mine to view and interpret the imported data in the context of the mine and as a function of time. The tool was developed using data from a single mine; however, it is intended to be a generic tool that can be easily extended to other mines. For example, a similar visualization tool is being developed for an underground coal mine in Colorado. The ultimate goal is for NIOSH researchers and mine personnel to be able to use the visualization tool to identify trends that may not otherwise be apparent when viewing the data separately. This presentation highlights the features and capabilities of the mine visualization tool and explains how it may be used to more effectively interpret data and reduce the risk of ground fall hazards to underground miners.

  18. MindSeer: a portable and extensible tool for visualization of structural and functional neuroimaging data

    Directory of Open Access Journals (Sweden)

    Brinkley James F

    2007-10-01

    Full Text Available Abstract Background Three-dimensional (3-D visualization of multimodality neuroimaging data provides a powerful technique for viewing the relationship between structure and function. A number of applications are available that include some aspect of 3-D visualization, including both free and commercial products. These applications range from highly specific programs for a single modality, to general purpose toolkits that include many image processing functions in addition to visualization. However, few if any of these combine both stand-alone and remote multi-modality visualization in an open source, portable and extensible tool that is easy to install and use, yet can be included as a component of a larger information system. Results We have developed a new open source multimodality 3-D visualization application, called MindSeer, that has these features: integrated and interactive 3-D volume and surface visualization, Java and Java3D for true cross-platform portability, one-click installation and startup, integrated data management to help organize large studies, extensibility through plugins, transparent remote visualization, and the ability to be integrated into larger information management systems. We describe the design and implementation of the system, as well as several case studies that demonstrate its utility. These case studies are available as tutorials or demos on the associated website: http://sig.biostr.washington.edu/projects/MindSeer. Conclusion MindSeer provides a powerful visualization tool for multimodality neuroimaging data. Its architecture and unique features also allow it to be extended into other visualization domains within biomedicine.

  19. Intervene: a tool for intersection and visualization of multiple gene or genomic region sets.

    Science.gov (United States)

    Khan, Aziz; Mathelier, Anthony

    2017-05-31

    A common task for scientists relies on comparing lists of genes or genomic regions derived from high-throughput sequencing experiments. While several tools exist to intersect and visualize sets of genes, similar tools dedicated to the visualization of genomic region sets are currently limited. To address this gap, we have developed the Intervene tool, which provides an easy and automated interface for the effective intersection and visualization of genomic region or list sets, thus facilitating their analysis and interpretation. Intervene contains three modules: venn to generate Venn diagrams of up to six sets, upset to generate UpSet plots of multiple sets, and pairwise to compute and visualize intersections of multiple sets as clustered heat maps. Intervene, and its interactive web ShinyApp companion, generate publication-quality figures for the interpretation of genomic region and list sets. Intervene and its web application companion provide an easy command line and an interactive web interface to compute intersections of multiple genomic and list sets. They have the capacity to plot intersections using easy-to-interpret visual approaches. Intervene is developed and designed to meet the needs of both computer scientists and biologists. The source code is freely available at https://bitbucket.org/CBGR/intervene , with the web application available at https://asntech.shinyapps.io/intervene .

  20. Developing an Interactive Data Visualization Tool to Assess the Impact of Decision Support on Clinical Operations.

    Science.gov (United States)

    Huber, Timothy C; Krishnaraj, Arun; Monaghan, Dayna; Gaskin, Cree M

    2018-05-18

    Due to mandates from recent legislation, clinical decision support (CDS) software is being adopted by radiology practices across the country. This software provides imaging study decision support for referring providers at the point of order entry. CDS systems produce a large volume of data, providing opportunities for research and quality improvement. In order to better visualize and analyze trends in this data, an interactive data visualization dashboard was created using a commercially available data visualization platform. Following the integration of a commercially available clinical decision support product into the electronic health record, a dashboard was created using a commercially available data visualization platform (Tableau, Seattle, WA). Data generated by the CDS were exported from the data warehouse, where they were stored, into the platform. This allowed for real-time visualization of the data generated by the decision support software. The creation of the dashboard allowed the output from the CDS platform to be more easily analyzed and facilitated hypothesis generation. Integrating data visualization tools into clinical decision support tools allows for easier data analysis and can streamline research and quality improvement efforts.

  1. Using a Self-Administered Visual Basic Software Tool To Teach Psychological Concepts.

    Science.gov (United States)

    Strang, Harold R.; Sullivan, Amie K.; Schoeny, Zahrl G.

    2002-01-01

    Introduces LearningLinks, a Visual Basic software tool that allows teachers to create individualized learning modules that use constructivist and behavioral learning principles. Describes field testing of undergraduates at the University of Virginia that tested a module designed to improve understanding of the psychological concepts of…

  2. The Film as Visual Aided Learning Tool in Classroom Management Course

    Science.gov (United States)

    Altinay Gazi, Zehra; Altinay Aksal, Fahriye

    2011-01-01

    This research aims to investigate the impact of the visual aided learning on pre-service teachers' co-construction of subject matter knowledge in teaching practice. The study revealed the examination of film as an active cognizing and learning tool in classroom management course within teacher education programme. Within the framework of action…

  3. Visual Tools for Eliciting Connections and Cohesiveness in Mixed Methods Research

    Science.gov (United States)

    Murawska, Jaclyn M.; Walker, David A.

    2017-01-01

    In this commentary, we offer a set of visual tools that can assist education researchers, especially those in the field of mathematics, in developing cohesiveness from a mixed methods perspective, commencing at a study's research questions and literature review, through its data collection and analysis, and finally to its results. This expounds…

  4. Visualization: A Tool for Enhancing Students' Concept Images of Basic Object-Oriented Concepts

    Science.gov (United States)

    Cetin, Ibrahim

    2013-01-01

    The purpose of this study was twofold: to investigate students' concept images about class, object, and their relationship and to help them enhance their learning of these notions with a visualization tool. Fifty-six second-year university students participated in the study. To investigate his/her concept images, the researcher developed a survey…

  5. An integrated audio-visual impact tool for wind turbine installations

    International Nuclear Information System (INIS)

    Lymberopoulos, N.; Belessis, M.; Wood, M.; Voutsinas, S.

    1996-01-01

    An integrated software tool was developed for the design of wind parks that takes into account their visual and audio impact. The application is built on a powerful hardware platform and is fully operated through a graphic user interface. The topography, the wind turbines and the daylight conditions are realised digitally. The wind park can be animated in real time and the user can take virtual walks in it while the set-up of the park can be altered interactively. In parallel, the wind speed levels on the terrain, the emitted noise intensity, the annual energy output and the cash flow can be estimated at any stage of the session and prompt the user for rearrangements. The tool has been used to visually simulate existing wind parks in St. Breok, UK and Andros Island, Greece. The results lead to the conclusion that such a tool can assist to the public acceptance and licensing procedures of wind parks. (author)

  6. Using Visual Simulation Tools And Learning Outcomes-Based Curriculum To Help Transportation Engineering Students And Practitioners To Better Understand And Design Traffic Signal Control Systems

    Science.gov (United States)

    2012-06-01

    The use of visual simulation tools to convey complex concepts has become a useful tool in education as well as in research. : This report describes a project that developed curriculum and visualization tools to train transportation engineering studen...

  7. Using data visualization tools to support degradation assessment in nuclear piping

    International Nuclear Information System (INIS)

    Jyrkama, M.I.; Pandey, M.D.

    2012-01-01

    Nuclear utilities collect a vast amount of in-service inspection data as part of periodic inspection plans and the detailed assessment and monitoring of various degradation mechanisms, such as fretting, corrosion, and creep. In many cases, the focus is primarily on ensuring that the observed minimum or maximum values are within the acceptable regulatory limits, while the rest of the (often costly) surveillance data remains unused and unanalyzed. The objective of this study is to illustrate how data visualization tools can be used effectively to analyze and consider all of the in-service inspection data, and hence provide valuable support for the degradation assessment in nuclear piping. The 2D and 3D visualization tools discussed in this paper were developed mainly in the context of flow accelerated corrosion (FAC) assessment in feeder piping, where the complex pipe geometries and flow conditions have a significant impact on the ultrasonic (UT) wall thickness measurements. The visualization of eddy current inspection results from the assessment of pitting corrosion of steam generator tubing will also be discussed briefly. The visualization tools provide a more comprehensive view of the degree and extent of degradation, and hence directly support the planning of future inspection of critical components by identifying key locations and areas for detailed monitoring. The results furthermore increase the confidence and reliability of fitness-for-service (FFS) assessments and life cycle management (LCM) planning decisions with respect to component repair or replacement. (author)

  8. Ultrascale Visualization Climate Data Analysis Tools (UV-CDAT) Final Report

    Energy Technology Data Exchange (ETDEWEB)

    Williams, Dean N. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2014-05-19

    A partnership across government, academic, and private sectors has created a novel system that enables climate researchers to solve current and emerging data analysis and visualization challenges. The Ultrascale Visualization Climate Data Analysis Tools (UV-CDAT) software project utilizes the Python application programming interface (API) combined with C/C++/Fortran implementations for performance-critical software that offers the best compromise between "scalability" and “ease-of-use.” The UV-CDAT system is highly extensible and customizable for high-performance interactive and batch visualization and analysis for climate science and other disciplines of geosciences. For complex, climate data-intensive computing, UV-CDAT’s inclusive framework supports Message Passing Interface (MPI) parallelism as well as taskfarming and other forms of parallelism. More specifically, the UV-CDAT framework supports the execution of Python scripts running in parallel using the MPI executable commands and leverages Department of Energy (DOE)-funded general-purpose, scalable parallel visualization tools such as ParaView and VisIt. This is the first system to be successfully designed in this way and with these features. The climate community leverages these tools and others, in support of a parallel client-server paradigm, allowing extreme-scale, server-side computing for maximum possible speed-up.

  9. Parallel analysis tools and new visualization techniques for ultra-large climate data set

    Energy Technology Data Exchange (ETDEWEB)

    Middleton, Don [National Center for Atmospheric Research, Boulder, CO (United States); Haley, Mary [National Center for Atmospheric Research, Boulder, CO (United States)

    2014-12-10

    ParVis was a project funded under LAB 10-05: “Earth System Modeling: Advanced Scientific Visualization of Ultra-Large Climate Data Sets”. Argonne was the lead lab with partners at PNNL, SNL, NCAR and UC-Davis. This report covers progress from January 1st, 2013 through Dec 1st, 2014. Two previous reports covered the period from Summer, 2010, through September 2011 and October 2011 through December 2012, respectively. While the project was originally planned to end on April 30, 2013, personnel and priority changes allowed many of the institutions to continue work through FY14 using existing funds. A primary focus of ParVis was introducing parallelism to climate model analysis to greatly reduce the time-to-visualization for ultra-large climate data sets. Work in the first two years was conducted on two tracks with different time horizons: one track to provide immediate help to climate scientists already struggling to apply their analysis to existing large data sets and another focused on building a new data-parallel library and tool for climate analysis and visualization that will give the field a platform for performing analysis and visualization on ultra-large datasets for the foreseeable future. In the final 2 years of the project, we focused mostly on the new data-parallel library and associated tools for climate analysis and visualization.

  10. XCluSim: a visual analytics tool for interactively comparing multiple clustering results of bioinformatics data

    Science.gov (United States)

    2015-01-01

    Background Though cluster analysis has become a routine analytic task for bioinformatics research, it is still arduous for researchers to assess the quality of a clustering result. To select the best clustering method and its parameters for a dataset, researchers have to run multiple clustering algorithms and compare them. However, such a comparison task with multiple clustering results is cognitively demanding and laborious. Results In this paper, we present XCluSim, a visual analytics tool that enables users to interactively compare multiple clustering results based on the Visual Information Seeking Mantra. We build a taxonomy for categorizing existing techniques of clustering results visualization in terms of the Gestalt principles of grouping. Using the taxonomy, we choose the most appropriate interactive visualizations for presenting individual clustering results from different types of clustering algorithms. The efficacy of XCluSim is shown through case studies with a bioinformatician. Conclusions Compared to other relevant tools, XCluSim enables users to compare multiple clustering results in a more scalable manner. Moreover, XCluSim supports diverse clustering algorithms and dedicated visualizations and interactions for different types of clustering results, allowing more effective exploration of details on demand. Through case studies with a bioinformatics researcher, we received positive feedback on the functionalities of XCluSim, including its ability to help identify stably clustered items across multiple clustering results. PMID:26328893

  11. iRaster: a novel information visualization tool to explore spatiotemporal patterns in multiple spike trains.

    Science.gov (United States)

    Somerville, J; Stuart, L; Sernagor, E; Borisyuk, R

    2010-12-15

    Over the last few years, simultaneous recordings of multiple spike trains have become widely used by neuroscientists. Therefore, it is important to develop new tools for analysing multiple spike trains in order to gain new insight into the function of neural systems. This paper describes how techniques from the field of visual analytics can be used to reveal specific patterns of neural activity. An interactive raster plot called iRaster has been developed. This software incorporates a selection of statistical procedures for visualization and flexible manipulations with multiple spike trains. For example, there are several procedures for the re-ordering of spike trains which can be used to unmask activity propagation, spiking synchronization, and many other important features of multiple spike train activity. Additionally, iRaster includes a rate representation of neural activity, a combined representation of rate and spikes, spike train removal and time interval removal. Furthermore, it provides multiple coordinated views, time and spike train zooming windows, a fisheye lens distortion, and dissemination facilities. iRaster is a user friendly, interactive, flexible tool which supports a broad range of visual representations. This tool has been successfully used to analyse both synthetic and experimentally recorded datasets. In this paper, the main features of iRaster are described and its performance and effectiveness are demonstrated using various types of data including experimental multi-electrode array recordings from the ganglion cell layer in mouse retina. iRaster is part of an ongoing research project called VISA (Visualization of Inter-Spike Associations) at the Visualization Lab in the University of Plymouth. The overall aim of the VISA project is to provide neuroscientists with the ability to freely explore and analyse their data. The software is freely available from the Visualization Lab website (see www.plymouth.ac.uk/infovis). Copyright © 2010

  12. Vizic: A Jupyter-based interactive visualization tool for astronomical catalogs

    Science.gov (United States)

    Yu, W.; Carrasco Kind, M.; Brunner, R. J.

    2017-07-01

    The ever-growing datasets in observational astronomy have challenged scientists in many aspects, including an efficient and interactive data exploration and visualization. Many tools have been developed to confront this challenge. However, they usually focus on displaying the actual images or focus on visualizing patterns within catalogs in a predefined way. In this paper we introduce Vizic, a Python visualization library that builds the connection between images and catalogs through an interactive map of the sky region. Vizic visualizes catalog data over a custom background canvas using the shape, size and orientation of each object in the catalog. The displayed objects in the map are highly interactive and customizable comparing to those in the observation images. These objects can be filtered by or colored by their property values, such as redshift and magnitude. They also can be sub-selected using a lasso-like tool for further analysis using standard Python functions and everything is done from inside a Jupyter notebook. Furthermore, Vizic allows custom overlays to be appended dynamically on top of the sky map. We have initially implemented several overlays, namely, Voronoi, Delaunay, Minimum Spanning Tree and HEALPix grid layer, which are helpful for visualizing large-scale structure. All these overlays can be generated, added or removed interactively with just one line of code. The catalog data is stored in a non-relational database, and the interfaces have been developed in JavaScript and Python to work within Jupyter Notebook, which allows to create customizable widgets, user generated scripts to analyze and plot the data selected/displayed in the interactive map. This unique design makes Vizic a very powerful and flexible interactive analysis tool. Vizic can be adopted in variety of exercises, for example, data inspection, clustering analysis, galaxy alignment studies, outlier identification or just large scale visualizations.

  13. Collaboratively Conceived, Designed and Implemented: Matching Visualization Tools with Geoscience Data Collections and Geoscience Data Collections with Visualization Tools via the ToolMatch Service.

    Science.gov (United States)

    Hoebelheinrich, N. J.; Lynnes, C.; West, P.; Ferritto, M.

    2014-12-01

    Two problems common to many geoscience domains are the difficulties in finding tools to work with a given dataset collection, and conversely, the difficulties in finding data for a known tool. A collaborative team from the Earth Science Information Partnership (ESIP) has gotten together to design and create a web service, called ToolMatch, to address these problems. The team began their efforts by defining an initial, relatively simple conceptual model that addressed the two uses cases briefly described above. The conceptual model is expressed as an ontology using OWL (Web Ontology Language) and DCterms (Dublin Core Terms), and utilizing standard ontologies such as DOAP (Description of a Project), FOAF (Friend of a Friend), SKOS (Simple Knowledge Organization System) and DCAT (Data Catalog Vocabulary). The ToolMatch service will be taking advantage of various Semantic Web and Web standards, such as OpenSearch, RESTful web services, SWRL (Semantic Web Rule Language) and SPARQL (Simple Protocol and RDF Query Language). The first version of the ToolMatch service was deployed in early fall 2014. While more complete testing is required, a number of communities besides ESIP member organizations have expressed interest in collaborating to create, test and use the service and incorporate it into their own web pages, tools and / or services including the USGS Data Catalog service, DataONE, the Deep Carbon Observatory, Virtual Solar Terrestrial Observatory (VSTO), and the U.S. Global Change Research Program. In this session, presenters will discuss the inception and development of the ToolMatch service, the collaborative process used to design, refine, and test the service, and future plans for the service.

  14. MONGKIE: an integrated tool for network analysis and visualization for multi-omics data.

    Science.gov (United States)

    Jang, Yeongjun; Yu, Namhee; Seo, Jihae; Kim, Sun; Lee, Sanghyuk

    2016-03-18

    Network-based integrative analysis is a powerful technique for extracting biological insights from multilayered omics data such as somatic mutations, copy number variations, and gene expression data. However, integrated analysis of multi-omics data is quite complicated and can hardly be done in an automated way. Thus, a powerful interactive visual mining tool supporting diverse analysis algorithms for identification of driver genes and regulatory modules is much needed. Here, we present a software platform that integrates network visualization with omics data analysis tools seamlessly. The visualization unit supports various options for displaying multi-omics data as well as unique network models for describing sophisticated biological networks such as complex biomolecular reactions. In addition, we implemented diverse in-house algorithms for network analysis including network clustering and over-representation analysis. Novel functions include facile definition and optimized visualization of subgroups, comparison of a series of data sets in an identical network by data-to-visual mapping and subsequent overlaying function, and management of custom interaction networks. Utility of MONGKIE for network-based visual data mining of multi-omics data was demonstrated by analysis of the TCGA glioblastoma data. MONGKIE was developed in Java based on the NetBeans plugin architecture, thus being OS-independent with intrinsic support of module extension by third-party developers. We believe that MONGKIE would be a valuable addition to network analysis software by supporting many unique features and visualization options, especially for analysing multi-omics data sets in cancer and other diseases. .

  15. Online characterization of planetary surfaces: PlanetServer, an open-source analysis and visualization tool

    Science.gov (United States)

    Marco Figuera, R.; Pham Huu, B.; Rossi, A. P.; Minin, M.; Flahaut, J.; Halder, A.

    2018-01-01

    The lack of open-source tools for hyperspectral data visualization and analysis creates a demand for new tools. In this paper we present the new PlanetServer, a set of tools comprising a web Geographic Information System (GIS) and a recently developed Python Application Programming Interface (API) capable of visualizing and analyzing a wide variety of hyperspectral data from different planetary bodies. Current WebGIS open-source tools are evaluated in order to give an overview and contextualize how PlanetServer can help in this matters. The web client is thoroughly described as well as the datasets available in PlanetServer. Also, the Python API is described and exposed the reason of its development. Two different examples of mineral characterization of different hydrosilicates such as chlorites, prehnites and kaolinites in the Nili Fossae area on Mars are presented. As the obtained results show positive outcome in hyperspectral analysis and visualization compared to previous literature, we suggest using the PlanetServer approach for such investigations.

  16. Development of Tool Representations in the Dorsal and Ventral Visual Object Processing Pathways

    Science.gov (United States)

    Kersey, Alyssa J.; Clark, Tyia S.; Lussier, Courtney A.; Mahon, Bradford Z.; Cantlon, Jessica F.

    2016-01-01

    Tools represent a special class of objects, because they are processed across both the dorsal and ventral visual object processing pathways. Three core regions are known to be involved in tool processing: the left posterior middle temporal gyrus, the medial fusiform gyrus (bilaterally), and the left inferior parietal lobule. A critical and relatively unexplored issue concerns whether, in development, tool preferences emerge at the same time and to a similar degree across all regions of the tool-processing network. To test this issue, we used functional magnetic resonance imaging to measure the neural amplitude, peak location, and the dispersion of tool-related neural responses in the youngest sample of children tested to date in this domain (ages 4–8 years). We show that children recruit overlapping regions of the adult tool-processing network and also exhibit similar patterns of co-activation across the network to adults. The amplitude and co-activation data show that the core components of the tool-processing network are established by age 4. Our findings on the distributions of peak location and dispersion of activation indicate that the tool network undergoes refinement between ages 4 and 8 years. PMID:26108614

  17. VisBOL: Web-Based Tools for Synthetic Biology Design Visualization.

    Science.gov (United States)

    McLaughlin, James Alastair; Pocock, Matthew; Mısırlı, Göksel; Madsen, Curtis; Wipat, Anil

    2016-08-19

    VisBOL is a Web-based application that allows the rendering of genetic circuit designs, enabling synthetic biologists to visually convey designs in SBOL visual format. VisBOL designs can be exported to formats including PNG and SVG images to be embedded in Web pages, presentations and publications. The VisBOL tool enables the automated generation of visualizations from designs specified using the Synthetic Biology Open Language (SBOL) version 2.0, as well as a range of well-known bioinformatics formats including GenBank and Pigeoncad notation. VisBOL is provided both as a user accessible Web site and as an open-source (BSD) JavaScript library that can be used to embed diagrams within other content and software.

  18. Tools for 3D scientific visualization in computational aerodynamics at NASA Ames Research Center

    International Nuclear Information System (INIS)

    Bancroft, G.; Plessel, T.; Merritt, F.; Watson, V.

    1989-01-01

    Hardware, software, and techniques used by the Fluid Dynamics Division (NASA) for performing visualization of computational aerodynamics, which can be applied to the visualization of flow fields from computer simulations of fluid dynamics about the Space Shuttle, are discussed. Three visualization techniques applied, post-processing, tracking, and steering, are described, as well as the post-processing software packages used, PLOT3D, SURF (Surface Modeller), GAS (Graphical Animation System), and FAST (Flow Analysis software Toolkit). Using post-processing methods a flow simulation was executed on a supercomputer and, after the simulation was complete, the results were processed for viewing. It is shown that the high-resolution, high-performance three-dimensional workstation combined with specially developed display and animation software provides a good tool for analyzing flow field solutions obtained from supercomputers. 7 refs

  19. A new web-based tool for data visualization in MDSplus

    Energy Technology Data Exchange (ETDEWEB)

    Manduchi, G., E-mail: gabriele.manduchi@igi.cnr.it [Consorzio RFX, Euratom-ENEA Association, Corso Stati Uniti 4, Padova 35127 (Italy); Fredian, T.; Stillerman, J. [Massachusetts Institute of Technology, 175 Albany Street, Cambridge, MA 02139 (United States)

    2014-05-15

    Highlights: • The paper describes a new web-based data visualization tool for MDSplus. • It describes the experience gained with the previous data visualization tools. • It describes the used technologies for web data access and visualization. • It describes the current architecture of the tool and the new foreseen features. - Abstract: The Java tool jScope has been widely used for years to display acquired waveform in MDSplus. The choice of the Java programming language for its implementation has been successful for several reasons among which the fact that Java supports a multiplatform environment and it is well suited for graphics and the management of network communication. jScope can be used both as a local and remote application. In the latter case, data are acquired via TCP/IP communication using the mdsip protocol. Exporting data in this way however introduces several security problems due to the necessity of opening firewall holes for the user ports. For this reason, and also due to the fact that JavaScript is becoming a widely used language for web applications, a new tool written in JavaScript and called WebScope has been developed for the visualization of MDSplus data in web browsers. Data communication is now achieved via http protocol using Asynchronous JavaScript and XML (AJAX) technology. At the server side, data access is carried out by a Python module that interacts with the web server via Web Server Gateway Interface (WSGI). When a data item, described by an MDSplus expression, is requested by the web browser for visualization, it is returned as a binary message and then handled by callback JavaScript functions activated by the web browser. Scalable Vector Graphics (SVG) technology is used to handle graphics within the web browser and to carry out the same interactive data visualization provided by jScope. In addition to mouse events, touch events are supported to provide interactivity also on touch screens. In this way, waveforms can be

  20. A new web-based tool for data visualization in MDSplus

    International Nuclear Information System (INIS)

    Manduchi, G.; Fredian, T.; Stillerman, J.

    2014-01-01

    Highlights: • The paper describes a new web-based data visualization tool for MDSplus. • It describes the experience gained with the previous data visualization tools. • It describes the used technologies for web data access and visualization. • It describes the current architecture of the tool and the new foreseen features. - Abstract: The Java tool jScope has been widely used for years to display acquired waveform in MDSplus. The choice of the Java programming language for its implementation has been successful for several reasons among which the fact that Java supports a multiplatform environment and it is well suited for graphics and the management of network communication. jScope can be used both as a local and remote application. In the latter case, data are acquired via TCP/IP communication using the mdsip protocol. Exporting data in this way however introduces several security problems due to the necessity of opening firewall holes for the user ports. For this reason, and also due to the fact that JavaScript is becoming a widely used language for web applications, a new tool written in JavaScript and called WebScope has been developed for the visualization of MDSplus data in web browsers. Data communication is now achieved via http protocol using Asynchronous JavaScript and XML (AJAX) technology. At the server side, data access is carried out by a Python module that interacts with the web server via Web Server Gateway Interface (WSGI). When a data item, described by an MDSplus expression, is requested by the web browser for visualization, it is returned as a binary message and then handled by callback JavaScript functions activated by the web browser. Scalable Vector Graphics (SVG) technology is used to handle graphics within the web browser and to carry out the same interactive data visualization provided by jScope. In addition to mouse events, touch events are supported to provide interactivity also on touch screens. In this way, waveforms can be

  1. EvolView, an online tool for visualizing, annotating and managing phylogenetic trees.

    Science.gov (United States)

    Zhang, Huangkai; Gao, Shenghan; Lercher, Martin J; Hu, Songnian; Chen, Wei-Hua

    2012-07-01

    EvolView is a web application for visualizing, annotating and managing phylogenetic trees. First, EvolView is a phylogenetic tree viewer and customization tool; it visualizes trees in various formats, customizes them through built-in functions that can link information from external datasets, and exports the customized results to publication-ready figures. Second, EvolView is a tree and dataset management tool: users can easily organize related trees into distinct projects, add new datasets to trees and edit and manage existing trees and datasets. To make EvolView easy to use, it is equipped with an intuitive user interface. With a free account, users can save data and manipulations on the EvolView server. EvolView is freely available at: http://www.evolgenius.info/evolview.html.

  2. New Tools for Sea Ice Data Analysis and Visualization: NSIDC's Arctic Sea Ice News and Analysis

    Science.gov (United States)

    Vizcarra, N.; Stroeve, J.; Beam, K.; Beitler, J.; Brandt, M.; Kovarik, J.; Savoie, M. H.; Skaug, M.; Stafford, T.

    2017-12-01

    Arctic sea ice has long been recognized as a sensitive climate indicator and has undergone a dramatic decline over the past thirty years. Antarctic sea ice continues to be an intriguing and active field of research. The National Snow and Ice Data Center's Arctic Sea Ice News & Analysis (ASINA) offers researchers and the public a transparent view of sea ice data and analysis. We have released a new set of tools for sea ice analysis and visualization. In addition to Charctic, our interactive sea ice extent graph, the new Sea Ice Data and Analysis Tools page provides access to Arctic and Antarctic sea ice data organized in seven different data workbooks, updated daily or monthly. An interactive tool lets scientists, or the public, quickly compare changes in ice extent and location. Another tool allows users to map trends, anomalies, and means for user-defined time periods. Animations of September Arctic and Antarctic monthly average sea ice extent and concentration may also be accessed from this page. Our tools help the NSIDC scientists monitor and understand sea ice conditions in near real time. They also allow the public to easily interact with and explore sea ice data. Technical innovations in our data center helped NSIDC quickly build these tools and more easily maintain them. The tools were made publicly accessible to meet the desire from the public and members of the media to access the numbers and calculations that power our visualizations and analysis. This poster explores these tools and how other researchers, the media, and the general public are using them.

  3. GeneWiz browser: An Interactive Tool for Visualizing Sequenced Chromosomes

    DEFF Research Database (Denmark)

    Hallin, Peter Fischer; Stærfeldt, Hans Henrik; Rotenberg, Eva

    2009-01-01

    , standard atlases are pre-generated for all prokaryotic genomes available in GenBank, providing a fast overview of all available genomes, including recently deposited genome sequences. The tool is available online from http://www.cbs.dtu.dk/services/gwBrowser. [Supplemental material including interactive...... atlases is available online at http://www.cbs.dtu.dk/services/gwBrowser/suppl/]....... readability and increased functionality compared to other browsers. The tool allows the user to select the display of various genomic features, color setting and data ranges. Custom numerical data can be added to the plot, allowing for example visualization of gene expression and regulation data. Further...

  4. VISUAL TOOLS FOR CROWDSOURCING DATA VALIDATION WITHIN THE GLOBELAND30 GEOPORTAL

    Directory of Open Access Journals (Sweden)

    E. Chuprikova

    2016-06-01

    Full Text Available This research aims to investigate the role of visualization of the user generated data that can empower the geoportal of GlobeLand30 produced by NGCC (National Geomatics Center of China. The focus is set on the development of a concept of tools that can extend the Geo-tagging functionality and make use of it for different target groups. The anticipated tools should improve the continuous data validation, updating and efficient use of the remotely-sensed data distributed within GlobeLand30.

  5. Visual Tools for Crowdsourcing Data Validation Within the GLOBELAND30 Geoportal

    Science.gov (United States)

    Chuprikova, E.; Wu, H.; Murphy, C. E.; Meng, L.

    2016-06-01

    This research aims to investigate the role of visualization of the user generated data that can empower the geoportal of GlobeLand30 produced by NGCC (National Geomatics Center of China). The focus is set on the development of a concept of tools that can extend the Geo-tagging functionality and make use of it for different target groups. The anticipated tools should improve the continuous data validation, updating and efficient use of the remotely-sensed data distributed within GlobeLand30.

  6. Three-dimensional visualization of ensemble weather forecasts – Part 1: The visualization tool Met.3D (version 1.0

    Directory of Open Access Journals (Sweden)

    M. Rautenhaus

    2015-07-01

    Full Text Available We present "Met.3D", a new open-source tool for the interactive three-dimensional (3-D visualization of numerical ensemble weather predictions. The tool has been developed to support weather forecasting during aircraft-based atmospheric field campaigns; however, it is applicable to further forecasting, research and teaching activities. Our work approaches challenging topics related to the visual analysis of numerical atmospheric model output – 3-D visualization, ensemble visualization and how both can be used in a meaningful way suited to weather forecasting. Met.3D builds a bridge from proven 2-D visualization methods commonly used in meteorology to 3-D visualization by combining both visualization types in a 3-D context. We address the issue of spatial perception in the 3-D view and present approaches to using the ensemble to allow the user to assess forecast uncertainty. Interactivity is key to our approach. Met.3D uses modern graphics technology to achieve interactive visualization on standard consumer hardware. The tool supports forecast data from the European Centre for Medium Range Weather Forecasts (ECMWF and can operate directly on ECMWF hybrid sigma-pressure level grids. We describe the employed visualization algorithms, and analyse the impact of the ECMWF grid topology on computing 3-D ensemble statistical quantities. Our techniques are demonstrated with examples from the T-NAWDEX-Falcon 2012 (THORPEX – North Atlantic Waveguide and Downstream Impact Experiment campaign.

  7. VisIt: An End-User Tool for Visualizing and Analyzing Very Large Data

    Energy Technology Data Exchange (ETDEWEB)

    Childs, Hank; Brugger, Eric; Whitlock, Brad; Meredith, Jeremy; Ahern, Sean; Pugmire, David; Biagas, Kathleen; Miller, Mark; Weber, Gunther H.; Krishnan, Hari; Fogal, Thomas; Sanderson, Allen; Garth, Christoph; Bethel, E. Wes; Camp, David; Ruebel, Oliver; Durant, Marc; Favre, Jean; Navratil, Paul

    2012-11-01

    VisIt is a popular open source tool for visualizing and analyzing big data. It owes its success to its foci of increasing data understanding, large data support, and providing a robust and usable product, as well as its underlying design that fits today's supercomputing landscape. This report, which draws heavily from an earlier publication at the SciDAC Conference in 2011 describes the VisIt project and its accomplishments.

  8. Intuitive Visualization of Transient Flow: Towards a Full 3D Tool

    Science.gov (United States)

    Michel, Isabel; Schröder, Simon; Seidel, Torsten; König, Christoph

    2015-04-01

    Visualization of geoscientific data is a challenging task especially when targeting a non-professional audience. In particular, the graphical presentation of transient vector data can be a significant problem. With STRING Fraunhofer ITWM (Kaiserslautern, Germany) in collaboration with delta h Ingenieurgesellschaft mbH (Witten, Germany) developed a commercial software for intuitive 2D visualization of 3D flow problems. Through the intuitive character of the visualization experts can more easily transport their findings to non-professional audiences. In STRING pathlets moving with the flow provide an intuition of velocity and direction of both steady-state and transient flow fields. The visualization concept is based on the Lagrangian view of the flow which means that the pathlets' movement is along the direction given by pathlines. In order to capture every detail of the flow an advanced method for intelligent, time-dependent seeding of the pathlets is implemented based on ideas of the Finite Pointset Method (FPM) originally conceived at and continuously developed by Fraunhofer ITWM. Furthermore, by the same method pathlets are removed during the visualization to avoid visual cluttering. Additional scalar flow attributes, for example concentration or potential, can either be mapped directly to the pathlets or displayed in the background of the pathlets on the 2D visualization plane. The extensive capabilities of STRING are demonstrated with the help of different applications in groundwater modeling. We will discuss the strengths and current restrictions of STRING which have surfaced during daily use of the software, for example by delta h. Although the software focusses on the graphical presentation of flow data for non-professional audiences its intuitive visualization has also proven useful to experts when investigating details of flow fields. Due to the popular reception of STRING and its limitation to 2D, the need arises for the extension to a full 3D tool

  9. πScope: Python based scientific workbench with MDSplus data visualization tool

    Energy Technology Data Exchange (ETDEWEB)

    Shiraiwa, S., E-mail: shiraiwa@PSFC.MIT.EDU; Fredian, T.; Hillairet, J.; Stillerman, J.

    2016-11-15

    Highlights: • πScope provides great enhancement in MDSplus data visualization. • πScope provides a single platform for both data browsing and complicated analysis. • πScope is scriptable and easily expandable due to its object oriented. • πScope is written in python and available from (http://piscope.psfc.mit.edu/). - Abstract: A newly developed python based scientific data analysis and visualization tool, πScope ( (http://piscope.psfc.mit.edu)), is reported. The primary motivation is 1) to provide an updated tool to browse the MDSplus data beyond existing dwscope/jScope and 2) to realize a universal foundation to construct interface tools to perform computer modeling from experimental data. To visualize MDSplus data, πScope has many features including overplotting different signals and discharges, generating various plot types (line, contour, image, etc.), performing in-panel data analysis using python scripts, and producing publication quality graphics. The logic to generate multi-panel plots is designed to be backward compatible with dwscope, enabling smooth migration for users. πScope uses multi-threading in data loading, and is easy to modify and expand due to its object-oriented design. Furthermore, A user can access the data structure both from a GUI and a script, enabling relatively complex data analysis workflow built quickly on πScope.

  10. Helioviewer: A Web 2.0 Tool for Visualizing Heterogeneous Heliophysics Data

    Science.gov (United States)

    Hughitt, V. K.; Ireland, J.; Lynch, M. J.; Schmeidel, P.; Dimitoglou, G.; Müeller, D.; Fleck, B.

    2008-12-01

    Solar physics datasets are becoming larger, richer, more numerous and more distributed. Feature/event catalogs (describing objects of interest in the original data) are becoming important tools in navigating these data. In the wake of this increasing influx of data and catalogs there has been a growing need for highly sophisticated tools for accessing and visualizing this wealth of information. Helioviewer is a novel tool for integrating and visualizing disparate sources of solar and Heliophysics data. Taking advantage of the newly available power of modern web application frameworks, Helioviewer merges image and feature catalog data, and provides for Heliophysics data a familiar interface not unlike Google Maps or MapQuest. In addition to streamlining the process of combining heterogeneous Heliophysics datatypes such as full-disk images and coronagraphs, the inclusion of visual representations of automated and human-annotated features provides the user with an integrated and intuitive view of how different factors may be interacting on the Sun. Currently, Helioviewer offers images from The Extreme ultraviolet Imaging Telescope (EIT), The Large Angle and Spectrometric COronagraph experiment (LASCO) and the Michelson Doppler Imager (MDI) instruments onboard The Solar and Heliospheric Observatory (SOHO), as well as The Transition Region and Coronal Explorer (TRACE). Helioviewer also incorporates feature/event information from the LASCO CME List, NOAA Active Regions, CACTus CME and Type II Radio Bursts feature/event catalogs. The project is undergoing continuous development with many more data sources and additional functionality planned for the near future.

  11. πScope: Python based scientific workbench with MDSplus data visualization tool

    International Nuclear Information System (INIS)

    Shiraiwa, S.; Fredian, T.; Hillairet, J.; Stillerman, J.

    2016-01-01

    Highlights: • πScope provides great enhancement in MDSplus data visualization. • πScope provides a single platform for both data browsing and complicated analysis. • πScope is scriptable and easily expandable due to its object oriented. • πScope is written in python and available from (http://piscope.psfc.mit.edu/). - Abstract: A newly developed python based scientific data analysis and visualization tool, πScope ( (http://piscope.psfc.mit.edu)), is reported. The primary motivation is 1) to provide an updated tool to browse the MDSplus data beyond existing dwscope/jScope and 2) to realize a universal foundation to construct interface tools to perform computer modeling from experimental data. To visualize MDSplus data, πScope has many features including overplotting different signals and discharges, generating various plot types (line, contour, image, etc.), performing in-panel data analysis using python scripts, and producing publication quality graphics. The logic to generate multi-panel plots is designed to be backward compatible with dwscope, enabling smooth migration for users. πScope uses multi-threading in data loading, and is easy to modify and expand due to its object-oriented design. Furthermore, A user can access the data structure both from a GUI and a script, enabling relatively complex data analysis workflow built quickly on πScope.

  12. Towards a New Generation of Time-Series Visualization Tools in the ESA Heliophysics Science Archives

    Science.gov (United States)

    Perez, H.; Martinez, B.; Cook, J. P.; Herment, D.; Fernandez, M.; De Teodoro, P.; Arnaud, M.; Middleton, H. R.; Osuna, P.; Arviset, C.

    2017-12-01

    During the last decades a varied set of Heliophysics missions have allowed the scientific community to gain a better knowledge on the solar atmosphere and activity. The remote sensing images of missions such as SOHO have paved the ground for Helio-based spatial data visualization software such as JHelioViewer/Helioviewer. On the other hand, the huge amount of in-situ measurements provided by other missions such as Cluster provide a wide base for plot visualization software whose reach is still far from being fully exploited. The Heliophysics Science Archives within the ESAC Science Data Center (ESDC) already provide a first generation of tools for time-series visualization focusing on each mission's needs: visualization of quicklook plots, cross-calibration time series, pre-generated/on-demand multi-plot stacks (Cluster), basic plot zoom in/out options (Ulysses) and easy navigation through the plots in time (Ulysses, Cluster, ISS-Solaces). However, as the needs evolve and the scientists involved in new missions require to plot multi-variable data, heat maps stacks interactive synchronization and axis variable selection among other improvements. The new Heliophysics archives (such as Solar Orbiter) and the evolution of existing ones (Cluster) intend to address these new challenges. This paper provides an overview of the different approaches for visualizing time-series followed within the ESA Heliophysics Archives and their foreseen evolution.

  13. Ultra-scale Visualization Climate Data Analysis Tools (UV-CDAT)

    Energy Technology Data Exchange (ETDEWEB)

    Williams, Dean N. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Silva, Claudio [New York Univ. (NYU), NY (United States). Computer Science and Engineering Dept.

    2013-09-30

    For the past three years, a large analysis and visualization effort—funded by the Department of Energy’s Office of Biological and Environmental Research (BER), the National Aeronautics and Space Administration (NASA), and the National Oceanic and Atmospheric Administration (NOAA)—has brought together a wide variety of industry-standard scientific computing libraries and applications to create Ultra-scale Visualization Climate Data Analysis Tools (UV-CDAT) to serve the global climate simulation and observational research communities. To support interactive analysis and visualization, all components connect through a provenance application–programming interface to capture meaningful history and workflow. Components can be loosely coupled into the framework for fast integration or tightly coupled for greater system functionality and communication with other components. The overarching goal of UV-CDAT is to provide a new paradigm for access to and analysis of massive, distributed scientific data collections by leveraging distributed data architectures located throughout the world. The UV-CDAT framework addresses challenges in analysis and visualization and incorporates new opportunities, including parallelism for better efficiency, higher speed, and more accurate scientific inferences. Today, it provides more than 600 users access to more analysis and visualization products than any other single source.

  14. Preoperative automatic visual behavioural analysis as a tool for intraocular lens choice in cataract surgery

    Directory of Open Access Journals (Sweden)

    Heloisa Neumann Nogueira

    2015-04-01

    Full Text Available Purpose: Cataract is the main cause of blindness, affecting 18 million people worldwide, with the highest incidence in the population above 50 years of age. Low visual acuity caused by cataract may have a negative impact on patient quality of life. The current treatment is surgery in order to replace the natural lens with an artificial intraocular lens (IOL, which can be mono- or multifocal. However, due to potential side effects, IOLs must be carefully chosen to ensure higher patient satisfaction. Thus, studies on the visual behavior of these patients may be an important tool to determine the best type of IOL implantation. This study proposed an anamnestic add-on for optimizing the choice of IOL. Methods: We used a camera that automatically takes pictures, documenting the patient’s visual routine in order to obtain additional information about the frequency of distant, intermediate, and near sights. Results: The results indicated an estimated frequency percentage, suggesting that visual analysis of routine photographic records of a patient with cataract may be useful for understanding behavioural gaze and for choosing visual management strategy after cataract surgery, simultaneously stimulating interest for customized IOL manufacturing according to individual needs.

  15. Visualization of neutron flux and power distributions in TRIGA Mark II reactor as an educational tool

    International Nuclear Information System (INIS)

    Snoj, Luka; Ravnik, Matjaz; Lengar, Igor

    2008-01-01

    Modern Monte Carlo computer codes (e.g. MCNP) for neutron transport allow calculation of detailed neutron flux and power distribution in complex geometries with resolution of ∼1 mm. Moreover they enable the calculation of individual particle tracks, scattering and absorption events. With the use of advanced software for 3D visualization (e.g. Amira, Voxler, etc.) one can create and present neutron flux and power distribution in a 'user friendly' way convenient for educational purposes. One can view axial, radial or any other spatial distribution of the neutron flux and power distribution in a nuclear reactor from various perspectives and in various modalities of presentation. By visualizing the distribution of scattering and absorption events and individual particle tracks one can visualize neutron transport parameters (mean free path, diffusion length, macroscopic cross section, up-scattering, thermalization, etc.) from elementary point of view. Most of the people remember better, if they visualize the processes. Therefore the representation of the reactor and neutron transport parameters is a convenient modern educational tool for the (nuclear power plant) operators, nuclear engineers, students and specialists involved in reactor operation and design. The visualization of neutron flux and power distributions in Jozef Stefan Institute TRIGA Mark II research reactor is treated in the paper. The distributions are calculated with MCNP computer code and presented using Amira and Voxler software. The results in the form of figures are presented in the paper together with comments qualitatively explaining the figures. (authors)

  16. Evaluation of a visual risk communication tool: effects on knowledge and perception of blood transfusion risk.

    Science.gov (United States)

    Lee, D H; Mehta, M D

    2003-06-01

    Effective risk communication in transfusion medicine is important for health-care consumers, but understanding the numerical magnitude of risks can be difficult. The objective of this study was to determine the effect of a visual risk communication tool on the knowledge and perception of transfusion risk. Laypeople were randomly assigned to receive transfusion risk information with either a written or a visual presentation format for communicating and comparing the probabilities of transfusion risks relative to other hazards. Knowledge of transfusion risk was ascertained with a multiple-choice quiz and risk perception was ascertained by psychometric scaling and principal components analysis. Two-hundred subjects were recruited and randomly assigned. Risk communication with both written and visual presentation formats increased knowledge of transfusion risk and decreased the perceived dread and severity of transfusion risk. Neither format changed the perceived knowledge and control of transfusion risk, nor the perceived benefit of transfusion. No differences in knowledge or risk perception outcomes were detected between the groups randomly assigned to written or visual presentation formats. Risk communication that incorporates risk comparisons in either written or visual presentation formats can improve knowledge and reduce the perception of transfusion risk in laypeople.

  17. On the road to a stronger public health workforce: visual tools to address complex challenges.

    Science.gov (United States)

    Drehobl, Patricia; Stover, Beth H; Koo, Denise

    2014-11-01

    The public health workforce is vital to protecting the health and safety of the public, yet for years, state and local governmental public health agencies have reported substantial workforce losses and other challenges to the workforce that threaten the public's health. These challenges are complex, often involve multiple influencing or related causal factors, and demand comprehensive solutions. However, proposed solutions often focus on selected factors and might be fragmented rather than comprehensive. This paper describes approaches to characterizing the situation more comprehensively and includes two visual tools: (1) a fishbone, or Ishikawa, diagram that depicts multiple factors affecting the public health workforce; and (2) a roadmap that displays key elements-goals and strategies-to strengthen the public health workforce, thus moving from the problems depicted in the fishbone toward solutions. The visual tools aid thinking about ways to strengthen the public health workforce through collective solutions and to help leverage resources and build on each other's work. The strategic roadmap is intended to serve as a dynamic tool for partnership, prioritization, and gap assessment. These tools reflect and support CDC's commitment to working with partners on the highest priorities for strengthening the workforce to improve the public's health. Published by Elsevier Inc.

  18. The development of a visualization tool for displaying analysis and test results

    International Nuclear Information System (INIS)

    Uncapher, W.L.; Ammerman, D.J.; Ludwigsen, J.S.; Wix, S.D.

    1995-01-01

    The evaluation and certification of packages for transportation of radioactive materials is performed by analysis, testing, or a combination of both. Within the last few years, many transport packages that were certified have used a combination of analysis and testing. The ability to combine and display both kinds of data with interactive graphical tools allows a faster and more complete understanding of the response of the package to these environments. Sandia National Laboratories has developed an initial version of a visualization tool that allows the comparison and display of test and of analytical data as part of a Department of Energy-sponsored program to support advanced analytical techniques and test methodologies. The capability of the tool extends to both mechanical (structural) and thermal data

  19. GO(vis), a gene ontology visualization tool based on multi-dimensional values.

    Science.gov (United States)

    Ning, Zi; Jiang, Zhenran

    2010-05-01

    Most of gene product similarity measurements concentrate on the information content of Gene Ontology (GO) terms or use a path-based similarity between GO terms, which may ignore other important information contained in the structure of the ontology. In our study, we integrate different GO similarity measure approaches to analyze the functional relationship of genes and gene products with a new triangle-based visualization tool called GO(Vis). The purpose of this tool is to demonstrate the effect of three important information factors when measuring the similarity between gene products. One advantage of this tool is that its important ratio can be adjusted to meet different measuring requirements according to the biological knowledge of each factor. The experimental results demonstrate that GO(Vis) can display diagrams of the functional relationship for gene products effectively.

  20. MARs Tools for Interactive ANalysis (MARTIAN): Google Maps Tools for Visual Exploration of Geophysical Modeling on Mars

    Science.gov (United States)

    Dimitrova, L. L.; Haines, M.; Holt, W. E.; Schultz, R. A.; Richard, G.; Haines, A. J.

    2006-12-01

    Interactive maps of surface-breaking faults and stress models on Mars provide important tools to engage undergraduate students, educators, and scientists with current geological and geophysical research. We have developed a map based on the Google Maps API -- an Internet based tool combining DHTML and AJAX, -- which allows very large maps to be viewed over the World Wide Web. Typically, small portions of the maps are downloaded as needed, rather than the entire image at once. This set-up enables relatively fast access for users with low bandwidth. Furthermore, Google Maps provides an extensible interactive interface making it ideal for visualizing multiple data sets at the user's choice. The Google Maps API works primarily with data referenced to latitudes and longitudes, which is then mapped in Mercator projection only. We have developed utilities for general cylindrical coordinate systems by converting these coordinates into equivalent Mercator projection before including them on the map. The MARTIAN project is available at http://rock.geo.sunysb.edu/~holt/Mars/MARTIAN/. We begin with an introduction to the Martian surface using a topography model. Faults from several datasets are classified by type (extension vs. compression) and by time epoch. Deviatoric stresses due to gravitational potential energy differences, calculated from the topography and crustal thickness, can be overlain. Several quantitative measures for the fit of the stress field to the faults are also included. We provide introductory text and exercises spanning a range of topics: how are faults identified, what stress is and how it relates to faults, what gravitational potential energy is and how variations in it produce stress, how the models are created, and how these models can be evaluated and interpreted. The MARTIAN tool is used at Stony Brook University in GEO 310: Introduction to Geophysics, a class geared towards junior and senior geosciences majors. Although this project is in its

  1. Web-Based Tools for Data Visualization and Decision Support for South Asia

    Science.gov (United States)

    Jones, N.; Nelson, J.; Pulla, S. T.; Ames, D. P.; Souffront, M.; David, C. H.; Zaitchik, B. F.; Gatlin, P. N.; Matin, M. A.

    2017-12-01

    The objective of the NASA SERVIR project is to assist developing countries in using information provided by Earth observing satellites to assess and manage climate risks, land use, and water resources. We present a collection of web apps that integrate earth observations and in situ data to facilitate deployment of data and water resources models as decision-making tools in support of this effort. The interactive nature of web apps makes this an excellent medium for creating decision support tools that harness cutting edge modeling techniques. Thin client apps hosted in a cloud portal eliminates the need for the decision makers to procure and maintain the high performance hardware required by the models, deal with issues related to software installation and platform incompatibilities, or monitor and install software updates, a problem that is exacerbated for many of the regional SERVIR hubs where both financial and technical capacity may be limited. All that is needed to use the system is an Internet connection and a web browser. We take advantage of these technologies to develop tools which can be centrally maintained but openly accessible. Advanced mapping and visualization make results intuitive and information derived actionable. We also take advantage of the emerging standards for sharing water information across the web using the OGC and WMO approved WaterML standards. This makes our tools interoperable and extensible via application programming interfaces (APIs) so that tools and data from other projects can both consume and share the tools developed in our project. Our approach enables the integration of multiple types of data and models, thus facilitating collaboration between science teams in SERVIR. The apps developed thus far by our team process time-varying netCDF files from Earth observations and large-scale computer simulations and allow visualization and exploration via raster animation and extraction of time series at selected points and/or regions.

  2. EcoBrowser: a web-based tool for visualizing transcriptome data of Escherichia coli

    Directory of Open Access Journals (Sweden)

    Jia Peng

    2011-10-01

    Full Text Available Abstract Background Escherichia coli has been extensively studied as a prokaryotic model organism whose whole genome was determined in 1997. However, it is difficult to identify all the gene products involved in diverse functions by using whole genome sequencesalone. The high-resolution transcriptome mapping using tiling arrays has proved effective to improve the annotation of transcript units and discover new transcripts of ncRNAs. While abundant tiling array data have been generated, the lack of appropriate visualization tools to accommodate and integrate multiple sources of data has emerged. Findings EcoBrowser is a web-based tool for visualizing genome annotations and transcriptome data of E. coli. Important tiling array data of E. coli from different experimental platforms are collected and processed for query. An AJAX based genome browser is embedded for visualization. Thus, genome annotations can be compared with transcript profiling and genome occupancy profiling from independent experiments, which will be helpful in discovering new transcripts including novel mRNAs and ncRNAs, generating a detailed description of the transcription unit architecture, further providing clues for investigation of prokaryotic transcriptional regulation that has proved to be far more complex than previously thought. Conclusions With the help of EcoBrowser, users can get a systemic view both from the vertical and parallel sides, as well as inspirations for the design of new experiments which will expand our understanding of the regulation mechanism.

  3. Digital administrative maps – A tool for visualization of epidemiological data

    Directory of Open Access Journals (Sweden)

    Ewa Niewiadomska

    2013-08-01

    Full Text Available Background: The aim of the study is to present the methods for visualization of epidemiological data using digital contour maps that take into account administrative division of Poland. Materials and Methods: The possibility of epidemiological data visualization in a geographical order, limited to the administrative level of the country, voivodeships and poviats (counties, are presented. They are crucial for the process of identifying and undertaking adequate prophylactic activities directed towards decreasing the risk and improving the population's health. This paper presents tools and techniques available in Geographic Information System ArcGIS and statistical software package R. Results: The work includes our own data reflecting: 1 the values of specific mortality rates due to respiratory diseases, Poland, 2010, based on the Central Statistical Office data, using the R statistical software package; 2 the averaged registered incidence rates of sarcoidosis in 2006-2010 for the population aged 19+ in the Silesian voivodeship, using Geographic Information System ArcGIS; and 3 the number of children with diagnosed respiratory diseases in the city of Legnica in 2009, taking into account their place of residence, using layered maps in Geographic Information System ArcGIS. Conclusions: The tools presented and described in this paper make it possible to visualize the results of research, to increase attractiveness of courses for students, as well as to enhance the skills and competence of students and participants of courses. Med Pr 2013;64(4:533–539

  4. A low complexity visualization tool that helps to perform complex systems analysis

    International Nuclear Information System (INIS)

    Beiro, M G; Alvarez-Hamelin, J I; Busch, J R

    2008-01-01

    In this paper, we present an extension of large network visualization (LaNet-vi), a tool to visualize large scale networks using the k-core decomposition. One of the new features is how vertices compute their angular position. While in the later version it is done using shell clusters, in this version we use the angular coordinate of vertices in higher k-shells, and arrange the highest shell according to a cliques decomposition. The time complexity goes from O(n√n) to O(n) upon bounds on a heavy-tailed degree distribution. The tool also performs a k-core-connectivity analysis, highlighting vertices that are not k-connected; e.g. this property is useful to measure robustness or quality of service (QoS) capabilities in communication networks. Finally, the actual version of LaNet-vi can draw labels and all the edges using transparencies, yielding an accurate visualization. Based on the obtained figure, it is possible to distinguish different sources and types of complex networks at a glance, in a sort of 'network iris-print'.

  5. A low complexity visualization tool that helps to perform complex systems analysis

    Science.gov (United States)

    Beiró, M. G.; Alvarez-Hamelin, J. I.; Busch, J. R.

    2008-12-01

    In this paper, we present an extension of large network visualization (LaNet-vi), a tool to visualize large scale networks using the k-core decomposition. One of the new features is how vertices compute their angular position. While in the later version it is done using shell clusters, in this version we use the angular coordinate of vertices in higher k-shells, and arrange the highest shell according to a cliques decomposition. The time complexity goes from O(n\\sqrt n) to O(n) upon bounds on a heavy-tailed degree distribution. The tool also performs a k-core-connectivity analysis, highlighting vertices that are not k-connected; e.g. this property is useful to measure robustness or quality of service (QoS) capabilities in communication networks. Finally, the actual version of LaNet-vi can draw labels and all the edges using transparencies, yielding an accurate visualization. Based on the obtained figure, it is possible to distinguish different sources and types of complex networks at a glance, in a sort of 'network iris-print'.

  6. A Hyperbolic Ontology Visualization Tool for Model Application Programming Interface Documentation

    Science.gov (United States)

    Hyman, Cody

    2011-01-01

    Spacecraft modeling, a critically important portion in validating planned spacecraft activities, is currently carried out using a time consuming method of mission to mission model implementations and integration. A current project in early development, Integrated Spacecraft Analysis (ISCA), aims to remedy this hindrance by providing reusable architectures and reducing time spent integrating models with planning and sequencing tools. The principle objective of this internship was to develop a user interface for an experimental ontology-based structure visualization of navigation and attitude control system modeling software. To satisfy this, a number of tree and graph visualization tools were researched and a Java based hyperbolic graph viewer was selected for experimental adaptation. Early results show promise in the ability to organize and display large amounts of spacecraft model documentation efficiently and effectively through a web browser. This viewer serves as a conceptual implementation for future development but trials with both ISCA developers and end users should be performed to truly evaluate the effectiveness of continued development of such visualizations.

  7. Evolview v2: an online visualization and management tool for customized and annotated phylogenetic trees.

    Science.gov (United States)

    He, Zilong; Zhang, Huangkai; Gao, Shenghan; Lercher, Martin J; Chen, Wei-Hua; Hu, Songnian

    2016-07-08

    Evolview is an online visualization and management tool for customized and annotated phylogenetic trees. It allows users to visualize phylogenetic trees in various formats, customize the trees through built-in functions and user-supplied datasets and export the customization results to publication-ready figures. Its 'dataset system' contains not only the data to be visualized on the tree, but also 'modifiers' that control various aspects of the graphical annotation. Evolview is a single-page application (like Gmail); its carefully designed interface allows users to upload, visualize, manipulate and manage trees and datasets all in a single webpage. Developments since the last public release include a modern dataset editor with keyword highlighting functionality, seven newly added types of annotation datasets, collaboration support that allows users to share their trees and datasets and various improvements of the web interface and performance. In addition, we included eleven new 'Demo' trees to demonstrate the basic functionalities of Evolview, and five new 'Showcase' trees inspired by publications to showcase the power of Evolview in producing publication-ready figures. Evolview is freely available at: http://www.evolgenius.info/evolview/. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

  8. Biomechanical ToolKit: Open-source framework to visualize and process biomechanical data.

    Science.gov (United States)

    Barre, Arnaud; Armand, Stéphane

    2014-04-01

    C3D file format is widely used in the biomechanical field by companies and laboratories to store motion capture systems data. However, few software packages can visualize and modify the integrality of the data in the C3D file. Our objective was to develop an open-source and multi-platform framework to read, write, modify and visualize data from any motion analysis systems using standard (C3D) and proprietary file formats (used by many companies producing motion capture systems). The Biomechanical ToolKit (BTK) was developed to provide cost-effective and efficient tools for the biomechanical community to easily deal with motion analysis data. A large panel of operations is available to read, modify and process data through C++ API, bindings for high-level languages (Matlab, Octave, and Python), and standalone application (Mokka). All these tools are open-source and cross-platform and run on all major operating systems (Windows, Linux, MacOS X). Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

  9. A Model-Driven Visualization Tool for Use with Model-Based Systems Engineering Projects

    Science.gov (United States)

    Trase, Kathryn; Fink, Eric

    2014-01-01

    Model-Based Systems Engineering (MBSE) promotes increased consistency between a system's design and its design documentation through the use of an object-oriented system model. The creation of this system model facilitates data presentation by providing a mechanism from which information can be extracted by automated manipulation of model content. Existing MBSE tools enable model creation, but are often too complex for the unfamiliar model viewer to easily use. These tools do not yet provide many opportunities for easing into the development and use of a system model when system design documentation already exists. This study creates a Systems Modeling Language (SysML) Document Traceability Framework (SDTF) for integrating design documentation with a system model, and develops an Interactive Visualization Engine for SysML Tools (InVEST), that exports consistent, clear, and concise views of SysML model data. These exported views are each meaningful to a variety of project stakeholders with differing subjects of concern and depth of technical involvement. InVEST allows a model user to generate multiple views and reports from a MBSE model, including wiki pages and interactive visualizations of data. System data can also be filtered to present only the information relevant to the particular stakeholder, resulting in a view that is both consistent with the larger system model and other model views. Viewing the relationships between system artifacts and documentation, and filtering through data to see specialized views improves the value of the system as a whole, as data becomes information

  10. Rocker: Open source, easy-to-use tool for AUC and enrichment calculations and ROC visualization.

    Science.gov (United States)

    Lätti, Sakari; Niinivehmas, Sanna; Pentikäinen, Olli T

    2016-01-01

    Receiver operating characteristics (ROC) curve with the calculation of area under curve (AUC) is a useful tool to evaluate the performance of biomedical and chemoinformatics data. For example, in virtual drug screening ROC curves are very often used to visualize the efficiency of the used application to separate active ligands from inactive molecules. Unfortunately, most of the available tools for ROC analysis are implemented into commercially available software packages, or are plugins in statistical software, which are not always the easiest to use. Here, we present Rocker, a simple ROC curve visualization tool that can be used for the generation of publication quality images. Rocker also includes an automatic calculation of the AUC for the ROC curve and Boltzmann-enhanced discrimination of ROC (BEDROC). Furthermore, in virtual screening campaigns it is often important to understand the early enrichment of active ligand identification, for this Rocker offers automated calculation routine. To enable further development of Rocker, it is freely available (MIT-GPL license) for use and modifications from our web-site (http://www.jyu.fi/rocker).

  11. Nanobodies as Versatile Tools to Understand, Diagnose, Visualize and Treat Cancer

    Directory of Open Access Journals (Sweden)

    Isabel Van Audenhove

    2016-06-01

    Full Text Available Since their discovery, nanobodies have been used extensively in the fields of research, diagnostics and therapy. These antigen binding fragments, originating from Camelid heavy-chain antibodies, possess unusual hallmarks in terms of (small size, stability, solubility and specificity, hence allowing cost-effective production and sometimes outperforming monoclonal antibodies. In this review, we evaluate the current status of nanobodies to study, diagnose, visualize or inhibit cancer-specific proteins and processes. Nanobodies are highly adaptable tools for cancer research as they enable specific modulation of targets, enzymatic and non-enzymatic proteins alike. Molecular imaging studies benefit from the rapid, homogeneous tumor accumulation of nanobodies and their fast blood clearance, permitting previously unattainable fast tumor visualization. Moreover, they are endowed with considerable therapeutic potential as inhibitors of receptor-ligand pairs and deliverers of drugs or drug-loaded nanoparticles towards tumors. More in vivo and clinical studies are however eagerly awaited to unleash their full potential.

  12. New Abstraction Networks and a New Visualization Tool in Support of Auditing the SNOMED CT Content

    Science.gov (United States)

    Geller, James; Ochs, Christopher; Perl, Yehoshua; Xu, Junchuan

    2012-01-01

    Medical terminologies are large and complex. Frequently, errors are hidden in this complexity. Our objective is to find such errors, which can be aided by deriving abstraction networks from a large terminology. Abstraction networks preserve important features but eliminate many minor details, which are often not useful for identifying errors. Providing visualizations for such abstraction networks aids auditors by allowing them to quickly focus on elements of interest within a terminology. Previously we introduced area taxonomies and partial area taxonomies for SNOMED CT. In this paper, two advanced, novel kinds of abstraction networks, the relationship-constrained partial area subtaxonomy and the root-constrained partial area subtaxonomy are defined and their benefits are demonstrated. We also describe BLUSNO, an innovative software tool for quickly generating and visualizing these SNOMED CT abstraction networks. BLUSNO is a dynamic, interactive system that provides quick access to well organized information about SNOMED CT. PMID:23304293

  13. ANLIZE: a molecular mechanics force field visualization tool and its application to 18-crown-6.

    Science.gov (United States)

    Stolworthy, L D; Shirts, R B

    1997-03-01

    We describe a software tool that allows one to visualize and analyze the importance of each individual steric interaction in a molecular mechanics force field. ANLIZE is presently implemented for the Dreiding force field for use with the Cerius2 software package, but could be implemented in any molecular mechanics package with a graphical user interface. ANLIZE calculates individual interactions in the force field, sorts them by size, and displays them in several ways from a menu of choices. This allows the user to scan through selected interactions to visualize which interactions are the primary determinants of preferred conformations. The features of ANLIZE are illustrated using 18-crown-6 as an example, and the factors governing conformational preference in 18-crown-6 are demonstrated. Users of molecular mechanics packages are encouraged to demand this functionality from commercial software producers.

  14. GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists

    Directory of Open Access Journals (Sweden)

    Steinfeld Israel

    2009-02-01

    Full Text Available Abstract Background Since the inception of the GO annotation project, a variety of tools have been developed that support exploring and searching the GO database. In particular, a variety of tools that perform GO enrichment analysis are currently available. Most of these tools require as input a target set of genes and a background set and seek enrichment in the target set compared to the background set. A few tools also exist that support analyzing ranked lists. The latter typically rely on simulations or on union-bound correction for assigning statistical significance to the results. Results GOrilla is a web-based application that identifies enriched GO terms in ranked lists of genes, without requiring the user to provide explicit target and background sets. This is particularly useful in many typical cases where genomic data may be naturally represented as a ranked list of genes (e.g. by level of expression or of differential expression. GOrilla employs a flexible threshold statistical approach to discover GO terms that are significantly enriched at the top of a ranked gene list. Building on a complete theoretical characterization of the underlying distribution, called mHG, GOrilla computes an exact p-value for the observed enrichment, taking threshold multiple testing into account without the need for simulations. This enables rigorous statistical analysis of thousand of genes and thousands of GO terms in order of seconds. The output of the enrichment analysis is visualized as a hierarchical structure, providing a clear view of the relations between enriched GO terms. Conclusion GOrilla is an efficient GO analysis tool with unique features that make a useful addition to the existing repertoire of GO enrichment tools. GOrilla's unique features and advantages over other threshold free enrichment tools include rigorous statistics, fast running time and an effective graphical representation. GOrilla is publicly available at: http://cbl-gorilla.cs.technion.ac.il

  15. Improvement of visual debugging tool. Shortening the elapsed time for getting data and adding new functions to compare/combine a set of visualized data

    International Nuclear Information System (INIS)

    Matsuda, Katsuyuki; Takemiya, Hiroshi

    2001-03-01

    The visual debugging tool 'vdebug' has been improved, which was designed for the debugging of programs for scientific computing. Improved were the following two points; (1) shortening the elapsed time required for getting appropriate data to visualize; (2) adding new functions which enable to compare and/or combine a set of visualized data originated from two or more different programs. As for shortening elapsed time for getting data, with the improved version of 'vdebug', we could achieve the following results; over hundred times shortening the elapsed time with dbx, pdbx of SX-4 and over ten times with ndb of SR2201. As for the new functions to compare/combine visualized data, it was confirmed that we could easily checked the consistency between the computational results obtained in each calculational steps on two different computers: SP and ONYX. In this report, we illustrate how the tool 'vdebug' has been improved with an example. (author)

  16. π Scope: python based scientific workbench with visualization tool for MDSplus data

    Science.gov (United States)

    Shiraiwa, S.

    2014-10-01

    π Scope is a python based scientific data analysis and visualization tool constructed on wxPython and Matplotlib. Although it is designed to be a generic tool, the primary motivation for developing the new software is 1) to provide an updated tool to browse MDSplus data, with functionalities beyond dwscope and jScope, and 2) to provide a universal foundation to construct interface tools to perform computer simulation and modeling for Alcator C-Mod. It provides many features to visualize MDSplus data during tokamak experiments including overplotting different signals and discharges, various plot types (line, contour, image, etc.), in-panel data analysis using python scripts, and publication quality graphics generation. Additionally, the logic to produce multi-panel plots is designed to be backward compatible with dwscope, enabling smooth migration for dwscope users. πScope uses multi-threading to reduce data transfer latency, and its object-oriented design makes it easy to modify and expand while the open source nature allows portability. A built-in tree data browser allows a user to approach the data structure both from a GUI and a script, enabling relatively complex data analysis workflow to be built quickly. As an example, an IDL-based interface to perform GENRAY/CQL3D simulations was ported on πScope, thus allowing LHCD simulation to be run between-shot using C-Mod experimental profiles. This workflow is being used to generate a large database to develop a LHCD actuator model for the plasma control system. Supported by USDoE Award DE-FC02-99ER54512.

  17. Data visualization, bar naked: A free tool for creating interactive graphics.

    Science.gov (United States)

    Weissgerber, Tracey L; Savic, Marko; Winham, Stacey J; Stanisavljevic, Dejana; Garovic, Vesna D; Milic, Natasa M

    2017-12-15

    Although bar graphs are designed for categorical data, they are routinely used to present continuous data in studies that have small sample sizes. This presentation is problematic, as many data distributions can lead to the same bar graph, and the actual data may suggest different conclusions from the summary statistics. To address this problem, many journals have implemented new policies that require authors to show the data distribution. This paper introduces a free, web-based tool for creating an interactive alternative to the bar graph (http://statistika.mfub.bg.ac.rs/interactive-dotplot/). This tool allows authors with no programming expertise to create customized interactive graphics, including univariate scatterplots, box plots, and violin plots, for comparing values of a continuous variable across different study groups. Individual data points may be overlaid on the graphs. Additional features facilitate visualization of subgroups or clusters of non-independent data. A second tool enables authors to create interactive graphics from data obtained with repeated independent experiments (http://statistika.mfub.bg.ac.rs/interactive-repeated-experiments-dotplot/). These tools are designed to encourage exploration and critical evaluation of the data behind the summary statistics and may be valuable for promoting transparency, reproducibility, and open science in basic biomedical research. © 2017 by The American Society for Biochemistry and Molecular Biology, Inc.

  18. Text mining and visualization case studies using open-source tools

    CERN Document Server

    Chisholm, Andrew

    2016-01-01

    Text Mining and Visualization: Case Studies Using Open-Source Tools provides an introduction to text mining using some of the most popular and powerful open-source tools: KNIME, RapidMiner, Weka, R, and Python. The contributors-all highly experienced with text mining and open-source software-explain how text data are gathered and processed from a wide variety of sources, including books, server access logs, websites, social media sites, and message boards. Each chapter presents a case study that you can follow as part of a step-by-step, reproducible example. You can also easily apply and extend the techniques to other problems. All the examples are available on a supplementary website. The book shows you how to exploit your text data, offering successful application examples and blueprints for you to tackle your text mining tasks and benefit from open and freely available tools. It gets you up to date on the latest and most powerful tools, the data mining process, and specific text mining activities.

  19. [Visual cues as a therapeutic tool in Parkinson's disease. A systematic review].

    Science.gov (United States)

    Muñoz-Hellín, Elena; Cano-de-la-Cuerda, Roberto; Miangolarra-Page, Juan Carlos

    2013-01-01

    Sensory stimuli or sensory cues are being used as a therapeutic tool for improving gait disorders in Parkinson's disease patients, but most studies seem to focus on auditory stimuli. The aim of this study was to conduct a systematic review regarding the use of visual cues over gait disorders, dual tasks during gait, freezing and the incidence of falls in patients with Parkinson to obtain therapeutic implications. We conducted a systematic review in main databases such as Cochrane Database of Systematic Reviews, TripDataBase, PubMed, Ovid MEDLINE, Ovid EMBASE and Physiotherapy Evidence Database, during 2005 to 2012, according to the recommendations of the Consolidated Standards of Reporting Trials, evaluating the quality of the papers included with the Downs & Black Quality Index. 21 articles were finally included in this systematic review (with a total of 892 participants) with variable methodological quality, achieving an average of 17.27 points in the Downs and Black Quality Index (range: 11-21). Visual cues produce improvements over temporal-spatial parameters in gait, turning execution, reducing the appearance of freezing and falls in Parkinson's disease patients. Visual cues appear to benefit dual tasks during gait, reducing the interference of the second task. Further studies are needed to determine the preferred type of stimuli for each stage of the disease. Copyright © 2012 SEGG. Published by Elsevier Espana. All rights reserved.

  20. Web tools for effective retrieval, visualization, and evaluation of cardiology medical images and records

    Science.gov (United States)

    Masseroli, Marco; Pinciroli, Francesco

    2000-12-01

    To provide easy retrieval, integration and evaluation of multimodal cardiology images and data in a web browser environment, distributed application technologies and java programming were used to implement a client-server architecture based on software agents. The server side manages secure connections and queries to heterogeneous remote databases and file systems containing patient personal and clinical data. The client side is a Java applet running in a web browser and providing a friendly medical user interface to perform queries on patient and medical test dat and integrate and visualize properly the various query results. A set of tools based on Java Advanced Imaging API enables to process and analyze the retrieved cardiology images, and quantify their features in different regions of interest. The platform-independence Java technology makes the developed prototype easy to be managed in a centralized form and provided in each site where an intranet or internet connection can be located. Giving the healthcare providers effective tools for querying, visualizing and evaluating comprehensively cardiology medical images and records in all locations where they can need them- i.e. emergency, operating theaters, ward, or even outpatient clinics- the developed prototype represents an important aid in providing more efficient diagnoses and medical treatments.

  1. VisualUrText: A Text Analytics Tool for Unstructured Textual Data

    Science.gov (United States)

    Zainol, Zuraini; Jaymes, Mohd T. H.; Nohuddin, Puteri N. E.

    2018-05-01

    The growing amount of unstructured text over Internet is tremendous. Text repositories come from Web 2.0, business intelligence and social networking applications. It is also believed that 80-90% of future growth data is available in the form of unstructured text databases that may potentially contain interesting patterns and trends. Text Mining is well known technique for discovering interesting patterns and trends which are non-trivial knowledge from massive unstructured text data. Text Mining covers multidisciplinary fields involving information retrieval (IR), text analysis, natural language processing (NLP), data mining, machine learning statistics and computational linguistics. This paper discusses the development of text analytics tool that is proficient in extracting, processing, analyzing the unstructured text data and visualizing cleaned text data into multiple forms such as Document Term Matrix (DTM), Frequency Graph, Network Analysis Graph, Word Cloud and Dendogram. This tool, VisualUrText, is developed to assist students and researchers for extracting interesting patterns and trends in document analyses.

  2. KENO3D visualization tool for KENO V.a geometry models

    International Nuclear Information System (INIS)

    Bowman, S.M.; Horwedel, J.E.

    1999-01-01

    The standardized computer analyses for licensing evaluations (SCALE) computer software system developed at Oak Ridge National Laboratory (ORNL) is widely used and accepted around the world for criticality safety analyses. SCALE includes the well-known KENO V.a three-dimensional Monte Carlo criticality computer code. Criticality safety analysis often require detailed modeling of complex geometries. Checking the accuracy of these models can be enhanced by effective visualization tools. To address this need, ORNL has recently developed a powerful state-of-the-art visualization tool called KENO3D that enables KENO V.a users to interactively display their three-dimensional geometry models. The interactive options include the following: (1) having shaded or wireframe images; (2) showing standard views, such as top view, side view, front view, and isometric three-dimensional view; (3) rotating the model; (4) zooming in on selected locations; (5) selecting parts of the model to display; (6) editing colors and displaying legends; (7) displaying properties of any unit in the model; (8) creating cutaway views; (9) removing units from the model; and (10) printing image or saving image to common graphics formats

  3. The effectiveness of dental health education tools for visually impaired students in Bukit Mertajam

    Science.gov (United States)

    Shahabudin, Saadiah; Hashim, Hasnah; Omar, Maizurah

    2016-12-01

    Oral health is a vital component of overall health. It is important in adults and children alike, however, it is even more crucial for children with special needs as they have limited ability to perform oral health practices. Disabled children deserve the same opportunity for oral health as normal children. Unfortunately, oral health care is the most unattended health needs of the disabled children. This study aimed to assess the effectiveness of dental health education tools for visually impaired students in two schools in Bukit Mertajam, Penang. The project utilized dental health education tools consisting of an oral health module (printed in braille for the blind and in font 18px for the partially blind), an audio narration of the module were prepared and content-validated by an expert panel. Baseline plaque scores of 38 subjects aged 6-17 years were determined by a trained dental staff nurse. The module was then administered to the subjects facilitated by the teachers. Post intervention plaque scores were recorded again after one month. The pre and post intervention data were analyzed using Wilcoxon Signed Ranks Test with a significant p value set at among students with visual impairment. We recommend for further studies to be conducted on a bigger sample.

  4. 2014 Earth System Grid Federation and Ultrascale Visualization Climate Data Analysis Tools Conference Report

    Energy Technology Data Exchange (ETDEWEB)

    Williams, Dean N. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2015-01-27

    The climate and weather data science community met December 9–11, 2014, in Livermore, California, for the fourth annual Earth System Grid Federation (ESGF) and Ultrascale Visualization Climate Data Analysis Tools (UV-CDAT) Face-to-Face (F2F) Conference, hosted by the Department of Energy, National Aeronautics and Space Administration, National Oceanic and Atmospheric Administration, the European Infrastructure for the European Network of Earth System Modelling, and the Australian Department of Education. Both ESGF and UVCDATremain global collaborations committed to developing a new generation of open-source software infrastructure that provides distributed access and analysis to simulated and observed data from the climate and weather communities. The tools and infrastructure created under these international multi-agency collaborations are critical to understanding extreme weather conditions and long-term climate change. In addition, the F2F conference fosters a stronger climate and weather data science community and facilitates a stronger federated software infrastructure. The 2014 F2F conference detailed the progress of ESGF, UV-CDAT, and other community efforts over the year and sets new priorities and requirements for existing and impending national and international community projects, such as the Coupled Model Intercomparison Project Phase Six. Specifically discussed at the conference were project capabilities and enhancements needs for data distribution, analysis, visualization, hardware and network infrastructure, standards, and resources.

  5. Validity of the growth model of the 'computerized visual perception assessment tool for Chinese characters structures'.

    Science.gov (United States)

    Wu, Huey-Min; Li, Cheng-Hsaun; Kuo, Bor-Chen; Yang, Yu-Mao; Lin, Chin-Kai; Wan, Wei-Hsiang

    2017-08-01

    Morphological awareness is the foundation for the important developmental skills involved with vocabulary, as well as understanding the meaning of words, orthographic knowledge, reading, and writing. Visual perception of space and radicals in two-dimensional positions of Chinese characters' morphology is very important in identifying Chinese characters. The important predictive variables of special and visual perception in Chinese characters identification were investigated in the growth model in this research. The assessment tool is the "Computerized Visual Perception Assessment Tool for Chinese Characters Structures" developed by this study. There are two constructs, basic stroke and character structure. In the basic stroke, there are three subtests of one, two, and more than three strokes. In the character structure, there are three subtests of single-component character, horizontal-compound character, and vertical-compound character. This study used purposive sampling. In the first year, 551 children 4-6 years old participated in the study and were monitored for one year. In the second year, 388 children remained in the study and the successful follow-up rate was 70.4%. This study used a two-wave cross-lagged panel design to validate the growth model of the basic stroke and the character structure. There was significant correlation of the basic stroke and the character structure at different time points. The abilities in the basic stroke and in the character structure steadily developed over time for preschool children. Children's knowledge of the basic stroke effectively predicted their knowledge of the basic stroke and the character structure. Copyright © 2017 Elsevier Ltd. All rights reserved.

  6. Visual operations management tools applied to the oil pipelines and terminals standardization process: the experience of TRANSPETRO

    Energy Technology Data Exchange (ETDEWEB)

    Almeida, Maria Fatima Ludovico de [Pontificia Universidade Catolica do Rio de Janeiro (PUC-Rio/ITUC), Rio de Janeiro, RJ (Brazil). Instituto Tecnologico; Santiago, Adilson; Ribeiro, Kassandra Senra; Arruda, Daniela Mendonca [TRANSPETRO - PETROBRAS Transporte S.A., Rio de Janeiro, RJ (Brazil)

    2009-07-01

    This paper describes the process by which visual operations management (VOM) tools were implemented, concerning standards and operational procedures in TRANSPETRO's Oil Pipelines and Terminals Unit. It provides: a brief literature review of visual operations management tools applied to total quality management and the standardization processes; a discussion of the assumptions from the second level of VOM (visual standards) upon which TRANSPETRO's oil pipelines and terminals business processes and operational procedures are based; and a description of the VOM implementation process involving more than 100 employees and one illustrative example of 'Quick Guides' for right-of- way management activities. Finally, it discusses the potential impacts and benefits of using VOM tools in the current practices in TRANSPETRO's Oil Pipelines and Terminals Unit, reinforcing the importance of such visual guides as vital to implement regional and corporate procedures, focusing on the main operational processes. (author)

  7. Visual operations management tools applied to the oil pipelines and terminals standardization process: the experience of TRANSPETRO

    Energy Technology Data Exchange (ETDEWEB)

    Almeida, Maria Fatima Ludovico de [Pontificia Universidade Catolica do Rio de Janeiro (PUC-Rio/ITUC), Rio de Janeiro, RJ (Brazil). Instituto Tecnologico; Santiago, Adilson; Ribeiro, Kassandra Senra; Arruda, Daniela Mendonca [TRANSPETRO - PETROBRAS Transporte S.A., Rio de Janeiro, RJ (Brazil)

    2009-07-01

    This paper describes the process by which visual operations management (VOM) tools were implemented, concerning standards and operational procedures in TRANSPETRO's Oil Pipelines and Terminals Unit. It provides: a brief literature review of visual operations management tools applied to total quality management and the standardization processes; a discussion of the assumptions from the second level of VOM (visual standards) upon which TRANSPETRO's oil pipelines and terminals business processes and operational procedures are based; and a description of the VOM implementation process involving more than 100 employees and one illustrative example of 'Quick Guides' for right-of- way management activities. Finally, it discusses the potential impacts and benefits of using VOM tools in the current practices in TRANSPETRO's Oil Pipelines and Terminals Unit, reinforcing the importance of such visual guides as vital to implement regional and corporate procedures, focusing on the main operational processes. (author)

  8. Tools for Teaching Mathematical Functions and Geometric Figures to Tactile Visualization through a Braille Printer for Visual Impairment People

    Directory of Open Access Journals (Sweden)

    Lorena León

    2016-04-01

    Full Text Available In this article, we showed the features and facilities offered by two new computer programs developed for the treatment and generation of geometric figures and math functions, through a Braille printer designed for visually impaired people. The programs have complete accessible features, in which users with full visual impairments can communicate with the systems via short-keys, and the speech synthesizer. The system sends sound messages that will accompanying the user during all the process to generate geometrical figures or to do a mathematical treatment. Finally, a tactile visualization displays as the results to the person with visual impairment, thus they will can complete their geometry and mathematical studies.

  9. Acceptance and practicability of a visual communication tool in smoking cessation counselling: a randomised controlled trial.

    Science.gov (United States)

    Neuner-Jehle, Stefan; Knecht, Marianne I; Stey-Steurer, Claudia; Senn, Oliver

    2013-12-01

    Smoking cessation advice is important for reducing the worldwide burden of disease resulting from tobacco smoking. Appropriate risk communication formats improve the success of counselling interventions in primary care. To test the feasibility and acceptance of a smoking cessation counselling tool with different cardiovascular risk communication formats including graphs, in comparison with the International Primary Care Respiratory Group (IPCRG) 'quit smoking assistance' tool. GPs were randomised into an intervention group (using our communication tool in addition to the IPCRG sheet) and a control group (using the IPCRG sheet only). We asked participants for socioeconomic data, smoking patterns, understanding of information, motivation, acceptance and feasibility, and measured the duration and frequency of counselling sessions. Twenty-five GPs performed 2.8 counselling sessions per month in the intervention group and 1.7 in the control group (p=0.3) with 114 patients. The median duration of a session was 10 mins (control group 11 mins, p=0.09 for difference). Median patients' motivation for smoking cessation was 7 on a 10-point visual analogue scale with no significant difference before and after the intervention (p=0.2) or between groups (p=0.73 before and p=0.15 after the intervention). Median patients' ratings of motivation, selfconfidence, understanding of information, and satisfaction with the counselling were 3-5 on a 5-point Likert scale, similar to GPs' ratings of acceptance and feasibility, with no significant difference between groups. Among Swiss GPs and patients, both our innovative communication tool and the IPCRG tool were well accepted and both merit further dissemination and application in research.

  10. Evaluating role of interactive visualization tool in improving students' conceptual understanding of chemical equilibrium

    Science.gov (United States)

    Sampath Kumar, Bharath

    The purpose of this study is to examine the role of partnering visualization tool such as simulation towards development of student's concrete conceptual understanding of chemical equilibrium. Students find chemistry concepts abstract, especially at the microscopic level. Chemical equilibrium is one such topic. While research studies have explored effectiveness of low tech instructional strategies such as analogies, jigsaw, cooperative learning, and using modeling blocks, fewer studies have explored the use of visualization tool such as simulations in the context of dynamic chemical equilibrium. Research studies have identified key reasons behind misconceptions such as lack of systematic understanding of foundational chemistry concepts, failure to recognize the system is dynamic, solving numerical problems on chemical equilibrium in an algorithmic fashion, erroneous application Le Chatelier's principle (LCP) etc. Kress et al. (2001) suggested that external representation in the form of visualization is more than a tool for learning, because it enables learners to make meanings or express their ideas which cannot be readily done so through a verbal representation alone. Mixed method study design was used towards data collection. The qualitative portion of the study is aimed towards understanding the change in student's mental model before and after the intervention. A quantitative instrument was developed based on common areas of misconceptions identified by research studies. A pilot study was conducted prior to the actual study to obtain feedback from students on the quantitative instrument and the simulation. Participants for the pilot study were sampled from a single general chemistry class. Following the pilot study, the research study was conducted with a total of 27 students (N=15 in experimental group and N=12 in control group). Prior to participating in the study, students have completed their midterm test on the topic of chemical equilibrium. Qualitative

  11. Spectacle and SpecViz: New Spectral Analysis and Visualization Tools

    Science.gov (United States)

    Earl, Nicholas; Peeples, Molly; JDADF Developers

    2018-01-01

    A new era of spectroscopic exploration of our universe is being ushered in with advances in instrumentation and next-generation space telescopes. The advent of new spectroscopic instruments has highlighted a pressing need for tools scientists can use to analyze and explore these new data. We have developed Spectacle, a software package for analyzing both synthetic spectra from hydrodynamic simulations as well as real COS data with an aim of characterizing the behavior of the circumgalactic medium. It allows easy reduction of spectral data and analytic line generation capabilities. Currently, the package is focused on automatic determination of absorption regions and line identification with custom line list support, simultaneous line fitting using Voigt profiles via least-squares or MCMC methods, and multi-component modeling of blended features. Non-parametric measurements, such as equivalent widths, delta v90, and full-width half-max are available. Spectacle also provides the ability to compose compound models used to generate synthetic spectra allowing the user to define various LSF kernels, uncertainties, and to specify sampling.We also present updates to the visualization tool SpecViz, developed in conjunction with the JWST data analysis tools development team, to aid in the exploration of spectral data. SpecViz is an open source, Python-based spectral 1-D interactive visualization and analysis application built around high-performance interactive plotting. It supports handling general and instrument-specific data and includes advanced tool-sets for filtering and detrending one-dimensional data, along with the ability to isolate absorption regions using slicing and manipulate spectral features via spectral arithmetic. Multi-component modeling is also possible using a flexible model fitting tool-set that supports custom models to be used with various fitting routines. It also features robust user extensions such as custom data loaders and support for user

  12. Three-Dimensional Online Visualization and Engagement Tools for the Geosciences

    Science.gov (United States)

    Cockett, R.; Moran, T.; Pidlisecky, A.

    2013-12-01

    Educational tools often sacrifice interactivity in favour of scalability so they can reach more users. This compromise leads to tools that may be viewed as second tier when compared to more engaging activities performed in a laboratory; however, the resources required to deliver laboratory exercises that are scalable is often impractical. Geoscience education is well situated to benefit from interactive online learning tools that allow users to work in a 3D environment. Visible Geology (http://3ptscience.com/visiblegeology) is an innovative web-based application designed to enable visualization of geologic structures and processes through the use of interactive 3D models. The platform allows users to conceptualize difficult, yet important geologic principles in a scientifically accurate manner by developing unique geologic models. The environment allows students to interactively practice their visualization and interpretation skills by creating and interacting with their own models and terrains. Visible Geology has been designed from a user centric perspective resulting in a simple and intuitive interface. The platform directs students to build there own geologic models by adding beds and creating geologic events such as tilting, folding, or faulting. The level of ownership and interactivity encourages engagement, leading learners to discover geologic relationships on their own, in the context of guided assignments. In January 2013, an interactive geologic history assignment was developed for a 700-student introductory geology class at The University of British Columbia. The assignment required students to distinguish the relative age of geologic events to construct a geologic history. Traditionally this type of exercise has been taught through the use of simple geologic cross-sections showing crosscutting relationships; from these cross-sections students infer the relative age of geologic events. In contrast, the Visible Geology assignment offers students a unique

  13. Mesoscale brain explorer, a flexible python-based image analysis and visualization tool.

    Science.gov (United States)

    Haupt, Dirk; Vanni, Matthieu P; Bolanos, Federico; Mitelut, Catalin; LeDue, Jeffrey M; Murphy, Tim H

    2017-07-01

    Imaging of mesoscale brain activity is used to map interactions between brain regions. This work has benefited from the pioneering studies of Grinvald et al., who employed optical methods to image brain function by exploiting the properties of intrinsic optical signals and small molecule voltage-sensitive dyes. Mesoscale interareal brain imaging techniques have been advanced by cell targeted and selective recombinant indicators of neuronal activity. Spontaneous resting state activity is often collected during mesoscale imaging to provide the basis for mapping of connectivity relationships using correlation. However, the information content of mesoscale datasets is vast and is only superficially presented in manuscripts given the need to constrain measurements to a fixed set of frequencies, regions of interest, and other parameters. We describe a new open source tool written in python, termed mesoscale brain explorer (MBE), which provides an interface to process and explore these large datasets. The platform supports automated image processing pipelines with the ability to assess multiple trials and combine data from different animals. The tool provides functions for temporal filtering, averaging, and visualization of functional connectivity relations using time-dependent correlation. Here, we describe the tool and show applications, where previously published datasets were reanalyzed using MBE.

  14. Different visual exploration of tool-related gestures in left hemisphere brain damaged patients is associated with poor gestural imitation.

    Science.gov (United States)

    Vanbellingen, Tim; Schumacher, Rahel; Eggenberger, Noëmi; Hopfner, Simone; Cazzoli, Dario; Preisig, Basil C; Bertschi, Manuel; Nyffeler, Thomas; Gutbrod, Klemens; Bassetti, Claudio L; Bohlhalter, Stephan; Müri, René M

    2015-05-01

    According to the direct matching hypothesis, perceived movements automatically activate existing motor components through matching of the perceived gesture and its execution. The aim of the present study was to test the direct matching hypothesis by assessing whether visual exploration behavior correlate with deficits in gestural imitation in left hemisphere damaged (LHD) patients. Eighteen LHD patients and twenty healthy control subjects took part in the study. Gesture imitation performance was measured by the test for upper limb apraxia (TULIA). Visual exploration behavior was measured by an infrared eye-tracking system. Short videos including forty gestures (20 meaningless and 20 communicative gestures) were presented. Cumulative fixation duration was measured in different regions of interest (ROIs), namely the face, the gesturing hand, the body, and the surrounding environment. Compared to healthy subjects, patients fixated significantly less the ROIs comprising the face and the gesturing hand during the exploration of emblematic and tool-related gestures. Moreover, visual exploration of tool-related gestures significantly correlated with tool-related imitation as measured by TULIA in LHD patients. Patients and controls did not differ in the visual exploration of meaningless gestures, and no significant relationships were found between visual exploration behavior and the imitation of emblematic and meaningless gestures in TULIA. The present study thus suggests that altered visual exploration may lead to disturbed imitation of tool related gestures, however not of emblematic and meaningless gestures. Consequently, our findings partially support the direct matching hypothesis. Copyright © 2015 Elsevier Ltd. All rights reserved.

  15. ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining.

    Science.gov (United States)

    Huan, Tianxiao; Sivachenko, Andrey Y; Harrison, Scott H; Chen, Jake Y

    2008-08-12

    New systems biology studies require researchers to understand how interplay among myriads of biomolecular entities is orchestrated in order to achieve high-level cellular and physiological functions. Many software tools have been developed in the past decade to help researchers visually navigate large networks of biomolecular interactions with built-in template-based query capabilities. To further advance researchers' ability to interrogate global physiological states of cells through multi-scale visual network explorations, new visualization software tools still need to be developed to empower the analysis. A robust visual data analysis platform driven by database management systems to perform bi-directional data processing-to-visualizations with declarative querying capabilities is needed. We developed ProteoLens as a JAVA-based visual analytic software tool for creating, annotating and exploring multi-scale biological networks. It supports direct database connectivity to either Oracle or PostgreSQL database tables/views, on which SQL statements using both Data Definition Languages (DDL) and Data Manipulation languages (DML) may be specified. The robust query languages embedded directly within the visualization software help users to bring their network data into a visualization context for annotation and exploration. ProteoLens supports graph/network represented data in standard Graph Modeling Language (GML) formats, and this enables interoperation with a wide range of other visual layout tools. The architectural design of ProteoLens enables the de-coupling of complex network data visualization tasks into two distinct phases: 1) creating network data association rules, which are mapping rules between network node IDs or edge IDs and data attributes such as functional annotations, expression levels, scores, synonyms, descriptions etc; 2) applying network data association rules to build the network and perform the visual annotation of graph nodes and edges

  16. Feature Usage Explorer: Usage Monitoring and Visualization Tool in HTML5 Based Applications

    Directory of Open Access Journals (Sweden)

    Sarunas Marciuska

    2013-10-01

    Full Text Available Feature Usage Explorer is a JavaScript library, which automatically detects features in HTML5 based applications and monitors their usage. The collected information can be visualized in a Feature Usage Diagram, which is automatically generated from an input json file. Currently, the users of Feature Usage Explorer have to design their own tool in order to generate the json file from collected usage information. This option remains viable when using the library in order not to constraint the user’s choice of preferred data storage. Feature Usage Explorer can be reused in any HTML5 based applications where an understanding of how users interact with the system is required (i.e. user experience and usability studies, human computer interaction field, or requirement prioritization area.

  17. Vortex filament method as a tool for computational visualization of quantum turbulence

    Science.gov (United States)

    Hänninen, Risto; Baggaley, Andrew W.

    2014-01-01

    The vortex filament model has become a standard and powerful tool to visualize the motion of quantized vortices in helium superfluids. In this article, we present an overview of the method and highlight its impact in aiding our understanding of quantum turbulence, particularly superfluid helium. We present an analysis of the structure and arrangement of quantized vortices. Our results are in agreement with previous studies showing that under certain conditions, vortices form coherent bundles, which allows for classical vortex stretching, giving quantum turbulence a classical nature. We also offer an explanation for the differences between the observed properties of counterflow and pure superflow turbulence in a pipe. Finally, we suggest a mechanism for the generation of coherent structures in the presence of normal fluid shear. PMID:24704873

  18. Data Visualization and Analysis Tools for the Global Precipitation Measurement (GPM) Validation Network

    Science.gov (United States)

    Morris, Kenneth R.; Schwaller, Mathew

    2010-01-01

    The Validation Network (VN) prototype for the Global Precipitation Measurement (GPM) Mission compares data from the Tropical Rainfall Measuring Mission (TRMM) satellite Precipitation Radar (PR) to similar measurements from U.S. and international operational weather radars. This prototype is a major component of the GPM Ground Validation System (GVS). The VN provides a means for the precipitation measurement community to identify and resolve significant discrepancies between the ground radar (GR) observations and similar satellite observations. The VN prototype is based on research results and computer code described by Anagnostou et al. (2001), Bolen and Chandrasekar (2000), and Liao et al. (2001), and has previously been described by Morris, et al. (2007). Morris and Schwaller (2009) describe the PR-GR volume-matching algorithm used to create the VN match-up data set used for the comparisons. This paper describes software tools that have been developed for visualization and statistical analysis of the original and volume matched PR and GR data.

  19. Usability Evaluation of the Spatial OLAP Visualization and Analysis Tool (SOVAT).

    Science.gov (United States)

    Scotch, Matthew; Parmanto, Bambang; Monaco, Valerie

    2007-02-01

    Increasingly sophisticated technologies, such as On-Line Analytical Processing (OLAP) and Geospatial Information Systems (GIS), are being leveraged for conducting community health assessments (CHA). Little is known about the usability of OLAP and GIS interfaces with respect to CHA. We conducted an iterative usability evaluation of the Spatial OLAP Visualization and Analysis Tool (SOVAT), a software application that combines OLAP and GIS. A total of nine graduate students and six community health researchers were asked to think-aloud while completing five CHA questions using SOVAT. The sessions were analyzed after every three participants and changes to the interface were made based on the findings. Measures included elapsed time, answers provided, erroneous actions, and satisfaction. Traditional OLAP interface features were poorly understood by participants and combined OLAP-GIS features needed to be better emphasized. The results suggest that the changes made to the SOVAT interface resulted in increases in both usability and user satisfaction.

  20. TROVE: A User-friendly Tool for Visualizing and Analyzing Cancer Hallmarks in Signaling Networks.

    Science.gov (United States)

    Chua, Huey Eng; Bhowmick, Sourav S; Zheng, Jie

    2017-09-22

    Cancer hallmarks, a concept that seeks to explain the complexity of cancer initiation and development, provide a new perspective of studying cancer signaling which could lead to a greater understanding of this complex disease. However, to the best of our knowledge, there is currently a lack of tools that support such hallmark-based study of the cancer signaling network, thereby impeding the gain of knowledge in this area. We present TROVE, a user-friendly software that facilitates hallmark annotation, visualization and analysis in cancer signaling networks. In particular, TROVE facilitates hallmark analysis specific to particular cancer types. Available under the Eclipse Public License from: https://sites.google.com/site/cosbyntu/softwares/trove and https://github.com/trove2017/Trove. hechua@ntu.edu.sg or assourav@ntu.edu.sg. © The Author (2017). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com

  1. GENEASE: Real time bioinformatics tool for multi-omics and disease ontology exploration, analysis and visualization.

    Science.gov (United States)

    Ghandikota, Sudhir; Hershey, Gurjit K Khurana; Mersha, Tesfaye B

    2018-03-24

    Advances in high-throughput sequencing technologies have made it possible to generate multiple omics data at an unprecedented rate and scale. The accumulation of these omics data far outpaces the rate at which biologists can mine and generate new hypothesis to test experimentally. There is an urgent need to develop a myriad of powerful tools to efficiently and effectively search and filter these resources to address specific post-GWAS functional genomics questions. However, to date, these resources are scattered across several databases and often lack a unified portal for data annotation and analytics. In addition, existing tools to analyze and visualize these databases are highly fragmented, resulting researchers to access multiple applications and manual interventions for each gene or variant in an ad hoc fashion until all the questions are answered. In this study, we present GENEASE, a web-based one-stop bioinformatics tool designed to not only query and explore multi-omics and phenotype databases (e.g., GTEx, ClinVar, dbGaP, GWAS Catalog, ENCODE, Roadmap Epigenomics, KEGG, Reactome, Gene and Phenotype Ontology) in a single web interface but also to perform seamless post genome-wide association downstream functional and overlap analysis for non-coding regulatory variants. GENEASE accesses over 50 different databases in public domain including model organism-specific databases to facilitate gene/variant and disease exploration, enrichment and overlap analysis in real time. It is a user-friendly tool with point-and-click interface containing links for support information including user manual and examples. GENEASE can be accessed freely at http://research.cchmc.org/mershalab/genease_new/login.html. Tesfaye.Mersha@cchmc.org, Sudhir.Ghandikota@cchmc.org. Supplementary data are available at Bioinformatics online.

  2. Noodles: a tool for visualization of numerical weather model ensemble uncertainty.

    Science.gov (United States)

    Sanyal, Jibonananda; Zhang, Song; Dyer, Jamie; Mercer, Andrew; Amburn, Philip; Moorhead, Robert J

    2010-01-01

    Numerical weather prediction ensembles are routinely used for operational weather forecasting. The members of these ensembles are individual simulations with either slightly perturbed initial conditions or different model parameterizations, or occasionally both. Multi-member ensemble output is usually large, multivariate, and challenging to interpret interactively. Forecast meteorologists are interested in understanding the uncertainties associated with numerical weather prediction; specifically variability between the ensemble members. Currently, visualization of ensemble members is mostly accomplished through spaghetti plots of a single mid-troposphere pressure surface height contour. In order to explore new uncertainty visualization methods, the Weather Research and Forecasting (WRF) model was used to create a 48-hour, 18 member parameterization ensemble of the 13 March 1993 "Superstorm". A tool was designed to interactively explore the ensemble uncertainty of three important weather variables: water-vapor mixing ratio, perturbation potential temperature, and perturbation pressure. Uncertainty was quantified using individual ensemble member standard deviation, inter-quartile range, and the width of the 95% confidence interval. Bootstrapping was employed to overcome the dependence on normality in the uncertainty metrics. A coordinated view of ribbon and glyph-based uncertainty visualization, spaghetti plots, iso-pressure colormaps, and data transect plots was provided to two meteorologists for expert evaluation. They found it useful in assessing uncertainty in the data, especially in finding outliers in the ensemble run and therefore avoiding the WRF parameterizations that lead to these outliers. Additionally, the meteorologists could identify spatial regions where the uncertainty was significantly high, allowing for identification of poorly simulated storm environments and physical interpretation of these model issues.

  3. DisEpi: Compact Visualization as a Tool for Applied Epidemiological Research.

    Science.gov (United States)

    Benis, Arriel; Hoshen, Moshe

    2017-01-01

    Outcomes research and evidence-based medical practice is being positively impacted by proliferation of healthcare databases. Modern epidemiologic studies require complex data comprehension. A new tool, DisEpi, facilitates visual exploration of epidemiological data supporting Public Health Knowledge Discovery. It provides domain-experts a compact visualization of information at the population level. In this study, DisEpi is applied to Attention-Deficit/Hyperactivity Disorder (ADHD) patients within Clalit Health Services, analyzing the socio-demographic and ADHD filled prescription data between 2006 and 2016 of 1,605,800 children aged 6 to 17 years. DisEpi's goals facilitate the identification of (1) Links between attributes and/or events, (2) Changes in these relationships over time, and (3) Clusters of population attributes for similar trends. DisEpi combines hierarchical clustering graphics and a heatmap where color shades reflect disease time-trends. In the ADHD context, DisEpi allowed the domain-expert to visually analyze a snapshot summary of data mining results. Accordingly, the domain-expert was able to efficiently identify that: (1) Relatively younger children and particularly youngest children in class are treated more often, (2) Medication incidence increased between 2006 and 2011 but then stabilized, and (3) Progression rates of medication incidence is different for each of the 3 main discovered clusters (aka: profiles) of treated children. DisEpi delivered results similar to those previously published which used classical statistical approaches. DisEpi requires minimal preparation and fewer iterations, generating results in a user-friendly format for the domain-expert. DisEpi will be wrapped as a package containing the end-to-end discovery process. Optionally, it may provide automated annotation using calendar events (such as policy changes or media interests), which can improve discovery efficiency, interpretation, and policy implementation.

  4. Planetary SUrface Portal (PSUP): a tool for easy visualization and analysis of Martian surface

    Science.gov (United States)

    Poulet, Francois; Quantin-Nataf, Cathy; Ballans, Hervé; Lozac'h, Loic; Audouard, Joachim; Carter, John; Dassas, karin; Malapert, Jean-Christophe; Marmo, Chiara; Poulleau, Gilles; Riu, Lucie; Séjourné, antoine

    2016-10-01

    PSUP is two software application platforms for working with raster, vector, DTM, and hyper-spectral data acquired by various space instruments analyzing the surface of Mars from orbit. The first platform of PSUP is MarsSI (Martian surface data processing Information System, http://emars.univ-lyon1.fr). It provides data analysis functionalities to select and download ready-to-use products or to process data though specific and validated pipelines. To date, MarsSI handles CTX, HiRISE and CRISM data of NASA/MRO mission, HRSC and OMEGA data of ESA/MEx mission and THEMIS data of NASA/ODY mission (Lozac'h et al., EPSC 2015). The second part of PSUP is also open to the scientific community and can be visited at http://psup.ias.u-psud.fr/. This web-based user interface provides access to many data products for Mars: image footprints and rasters from the MarsSI tool; compositional maps from OMEGA and TES; albedo and thermal inertia from OMEGA and TES; mosaics from THEMIS, Viking, and CTX; high level specific products (defined as catalogues) such as hydrated mineral sites derived from CRISM and OMEGA data, central peaks mineralogy,… In addition, OMEGA C channel data cubes corrected for atmospheric and aerosol contributions can be downloaded. The architecture of PSUP data management and visualization is based on SITools2 and MIZAR, two CNES generic tools developed by a joint effort between CNES and scientific laboratories. SITools2 provides a self-manageable data access layer deployed on the PSUP data, while MIZAR is 3D application in a browser for discovering and visualizing geospatial data. Further developments including the addition of high level products of Mars (regional geological maps, new global compositional maps,…) are foreseen. Ultimately, PSUP will be adapted to other planetary surfaces and space missions in which the French research institutes are involved.

  5. sbml-diff: A Tool for Visually Comparing SBML Models in Synthetic Biology.

    Science.gov (United States)

    Scott-Brown, James; Papachristodoulou, Antonis

    2017-07-21

    We present sbml-diff, a tool that is able to read a model of a biochemical reaction network in SBML format and produce a range of diagrams showing different levels of detail. Each diagram type can be used to visualize a single model or to visually compare two or more models. The default view depicts species as ellipses, reactions as rectangles, rules as parallelograms, and events as diamonds. A cartoon view replaces the symbols used for reactions on the basis of the associated Systems Biology Ontology terms. An abstract view represents species as ellipses and draws edges between them to indicate whether a species increases or decreases the production or degradation of another species. sbml-diff is freely licensed under the three-clause BSD license and can be downloaded from https://github.com/jamesscottbrown/sbml-diff and used as a python package called from other software, as a free-standing command-line application, or online using the form at http://sysos.eng.ox.ac.uk/tebio/upload.

  6. Footprints: A Visual Search Tool that Supports Discovery and Coverage Tracking.

    Science.gov (United States)

    Isaacs, Ellen; Domico, Kelly; Ahern, Shane; Bart, Eugene; Singhal, Mudita

    2014-12-01

    Searching a large document collection to learn about a broad subject involves the iterative process of figuring out what to ask, filtering the results, identifying useful documents, and deciding when one has covered enough material to stop searching. We are calling this activity "discoverage," discovery of relevant material and tracking coverage of that material. We built a visual analytic tool called Footprints that uses multiple coordinated visualizations to help users navigate through the discoverage process. To support discovery, Footprints displays topics extracted from documents that provide an overview of the search space and are used to construct searches visuospatially. Footprints allows users to triage their search results by assigning a status to each document (To Read, Read, Useful), and those status markings are shown on interactive histograms depicting the user's coverage through the documents across dates, sources, and topics. Coverage histograms help users notice biases in their search and fill any gaps in their analytic process. To create Footprints, we used a highly iterative, user-centered approach in which we conducted many evaluations during both the design and implementation stages and continually modified the design in response to feedback.

  7. Development of a Carbon Sequestration Visualization Tool using Google Earth Pro

    Science.gov (United States)

    Keating, G. N.; Greene, M. K.

    2008-12-01

    The Big Sky Carbon Sequestration Partnership seeks to prepare organizations throughout the western United States for a possible carbon-constrained economy. Through the development of CO2 capture and subsurface sequestration technology, the Partnership is working to enable the region to cleanly utilize its abundant fossil energy resources. The intent of the Los Alamos National Laboratory Big Sky Visualization tool is to allow geochemists, geologists, geophysicists, project managers, and other project members to view, identify, and query the data collected from CO2 injection tests using a single data source platform, a mission to which Google Earth Pro is uniquely and ideally suited . The visualization framework enables fusion of data from disparate sources and allows investigators to fully explore spatial and temporal trends in CO2 fate and transport within a reservoir. 3-D subsurface wells are projected above ground in Google Earth as the KML anchor points for the presentation of various surface subsurface data. This solution is the most integrative and cost-effective possible for the variety of users in the Big Sky community.

  8. Images as tools. On visual epistemic practices in the biological sciences.

    Science.gov (United States)

    Samuel, Nina

    2013-06-01

    Contemporary visual epistemic practices in the biological sciences raise new questions of how to transform an iconic data measurements into images, and how the process of an imaging technique may change the material it is 'depicting'. This case-oriented study investigates microscopic imagery, which is used by system and synthetic biologists alike. The core argument is developed around the analysis of two recent methods, developed between 2003 and 2006: localization microscopy and photo-induced cell death. Far from functioning merely as illustrations of work done by other means, images can be determined as tools for discovery in their own right and as objects of investigation. Both methods deploy different constellations of intended and unintended interactions between visual appearance and underlying biological materiality. To characterize these new ways of interaction, the article introduces the notions of 'operational images' and 'operational agency'. Despite all their novelty, operational images are still subject to conventions of seeing and depicting: Phenomena emerging with the new method of localization microscopy have to be designed according to image traditions of older, conventional fluorescence microscopy to function properly as devices for communication between physicists and biologists. The article emerged from a laboratory study based on interviews conducted with researchers from the Kirchhoff-Institute for Physics and German Cancer Research Center (DKFZ) at Bioquant, Heidelberg, in 2011. Copyright © 2013 Elsevier Ltd. All rights reserved.

  9. A Software Tool to Visualize Verbal Protocols to Enhance Strategic and Metacognitive Abilities in Basic Programming

    Directory of Open Access Journals (Sweden)

    Carlos A. Arévalo

    2011-07-01

    Full Text Available Learning to program is difficult for many first year undergraduate students. Instructional strategies of traditional programming courses tend to focus on syntactic issues and assigning practice exercises using the presentation-examples-practice formula and by showing the verbal and visual explanation of a teacher during the “step by step” process of writing a computer program. Cognitive literature regarding the mental processes involved in programming suggests that the explicit teaching of certain aspects such as mental models, strategic knowledge and metacognitive abilities, are critical issues of how to write and assemble the pieces of a computer program. Verbal protocols are often used in software engineering as a technique to record the short term cognitive process of a user or expert in evaluation or problem solving scenarios. We argue that verbal protocols can be used as a mechanism to explicitly show the strategic and metacognitive process of an instructor when writing a program. In this paper we present an Information System Prototype developed to store and visualize worked examples derived from transcribed verbal protocols during the process of writing introductory level programs. Empirical data comparing the grades obtained by two groups of novice programming students, using ANOVA, indicates a statistically positive difference in performance in the group using the tool, even though these results still cannot be extrapolated to general population, given the reported limitations of this study.

  10. Visual Basic, Excel-based fish population modeling tool - The pallid sturgeon example

    Science.gov (United States)

    Moran, Edward H.; Wildhaber, Mark L.; Green, Nicholas S.; Albers, Janice L.

    2016-02-10

    The model presented in this report is a spreadsheet-based model using Visual Basic for Applications within Microsoft Excel (http://dx.doi.org/10.5066/F7057D0Z) prepared in cooperation with the U.S. Army Corps of Engineers and U.S. Fish and Wildlife Service. It uses the same model structure and, initially, parameters as used by Wildhaber and others (2015) for pallid sturgeon. The difference between the model structure used for this report and that used by Wildhaber and others (2015) is that variance is not partitioned. For the model of this report, all variance is applied at the iteration and time-step levels of the model. Wildhaber and others (2015) partition variance into parameter variance (uncertainty about the value of a parameter itself) applied at the iteration level and temporal variance (uncertainty caused by random environmental fluctuations with time) applied at the time-step level. They included implicit individual variance (uncertainty caused by differences between individuals) within the time-step level.The interface developed for the model of this report is designed to allow the user the flexibility to change population model structure and parameter values and uncertainty separately for every component of the model. This flexibility makes the modeling tool potentially applicable to any fish species; however, the flexibility inherent in this modeling tool makes it possible for the user to obtain spurious outputs. The value and reliability of the model outputs are only as good as the model inputs. Using this modeling tool with improper or inaccurate parameter values, or for species for which the structure of the model is inappropriate, could lead to untenable management decisions. By facilitating fish population modeling, this modeling tool allows the user to evaluate a range of management options and implications. The goal of this modeling tool is to be a user-friendly modeling tool for developing fish population models useful to natural resource

  11. BYMUR software: a free and open source tool for quantifying and visualizing multi-risk analyses

    Science.gov (United States)

    Tonini, Roberto; Selva, Jacopo

    2013-04-01

    The BYMUR software aims to provide an easy-to-use open source tool for both computing multi-risk and managing/visualizing/comparing all the inputs (e.g. hazard, fragilities and exposure) as well as the corresponding results (e.g. risk curves, risk indexes). For all inputs, a complete management of inter-model epistemic uncertainty is considered. The BYMUR software will be one of the final products provided by the homonymous ByMuR project (http://bymur.bo.ingv.it/) funded by Italian Ministry of Education, Universities and Research (MIUR), focused to (i) provide a quantitative and objective general method for a comprehensive long-term multi-risk analysis in a given area, accounting for inter-model epistemic uncertainty through Bayesian methodologies, and (ii) apply the methodology to seismic, volcanic and tsunami risks in Naples (Italy). More specifically, the BYMUR software will be able to separately account for the probabilistic hazard assessment of different kind of hazardous phenomena, the relative (time-dependent/independent) vulnerabilities and exposure data, and their possible (predefined) interactions: the software will analyze these inputs and will use them to estimate both single- and multi- risk associated to a specific target area. In addition, it will be possible to connect the software to further tools (e.g., a full hazard analysis), allowing a dynamic I/O of results. The use of Python programming language guarantees that the final software will be open source and platform independent. Moreover, thanks to the integration of some most popular and rich-featured Python scientific modules (Numpy, Matplotlib, Scipy) with the wxPython graphical user toolkit, the final tool will be equipped with a comprehensive Graphical User Interface (GUI) able to control and visualize (in the form of tables, maps and/or plots) any stage of the multi-risk analysis. The additional features of importing/exporting data in MySQL databases and/or standard XML formats (for

  12. Visible Earthquakes: a web-based tool for visualizing and modeling InSAR earthquake data

    Science.gov (United States)

    Funning, G. J.; Cockett, R.

    2012-12-01

    InSAR (Interferometric Synthetic Aperture Radar) is a technique for measuring the deformation of the ground using satellite radar data. One of the principal applications of this method is in the study of earthquakes; in the past 20 years over 70 earthquakes have been studied in this way, and forthcoming satellite missions promise to enable the routine and timely study of events in the future. Despite the utility of the technique and its widespread adoption by the research community, InSAR does not feature in the teaching curricula of most university geoscience departments. This is, we believe, due to a lack of accessibility to software and data. Existing tools for the visualization and modeling of interferograms are often research-oriented, command line-based and/or prohibitively expensive. Here we present a new web-based interactive tool for comparing real InSAR data with simple elastic models. The overall design of this tool was focused on ease of access and use. This tool should allow interested nonspecialists to gain a feel for the use of such data and greatly facilitate integration of InSAR into upper division geoscience courses, giving students practice in comparing actual data to modeled results. The tool, provisionally named 'Visible Earthquakes', uses web-based technologies to instantly render the displacement field that would be observable using InSAR for a given fault location, geometry, orientation, and slip. The user can adjust these 'source parameters' using a simple, clickable interface, and see how these affect the resulting model interferogram. By visually matching the model interferogram to a real earthquake interferogram (processed separately and included in the web tool) a user can produce their own estimates of the earthquake's source parameters. Once satisfied with the fit of their models, users can submit their results and see how they compare with the distribution of all other contributed earthquake models, as well as the mean and median

  13. PANDA-view: An easy-to-use tool for statistical analysis and visualization of quantitative proteomics data.

    Science.gov (United States)

    Chang, Cheng; Xu, Kaikun; Guo, Chaoping; Wang, Jinxia; Yan, Qi; Zhang, Jian; He, Fuchu; Zhu, Yunping

    2018-05-22

    Compared with the numerous software tools developed for identification and quantification of -omics data, there remains a lack of suitable tools for both downstream analysis and data visualization. To help researchers better understand the biological meanings in their -omics data, we present an easy-to-use tool, named PANDA-view, for both statistical analysis and visualization of quantitative proteomics data and other -omics data. PANDA-view contains various kinds of analysis methods such as normalization, missing value imputation, statistical tests, clustering and principal component analysis, as well as the most commonly-used data visualization methods including an interactive volcano plot. Additionally, it provides user-friendly interfaces for protein-peptide-spectrum representation of the quantitative proteomics data. PANDA-view is freely available at https://sourceforge.net/projects/panda-view/. 1987ccpacer@163.com and zhuyunping@gmail.com. Supplementary data are available at Bioinformatics online.

  14. A Tool for Interactive Data Visualization: Application to Over 10,000 Brain Imaging and Phantom MRI Data Sets

    OpenAIRE

    Panta, Sandeep R.; Wang, Runtang; Fries, Jill; Kalyanam, Ravi; Speer, Nicole; Banich, Marie; Kiehl, Kent; King, Margaret; Milham, Michael; Wager, Tor D.; Turner, Jessica A.; Plis, Sergey M.; Calhoun, Vince D.

    2016-01-01

    In this paper we propose a web-based approach for quick visualization of big data from brain magnetic resonance imaging (MRI) scans using a combination of an automated image capture and processing system, nonlinear embedding, and interactive data visualization tools. We draw upon thousands of MRI scans captured via the COllaborative Imaging and Neuroinformatics Suite (COINS). We then interface the output of several analysis pipelines based on structural and functional data to a t-distributed ...

  15. The Ultra-scale Visualization Climate Data Analysis Tools (UV-CDAT): Data Analysis and Visualization for Geoscience Data

    Energy Technology Data Exchange (ETDEWEB)

    Williams, Dean [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Doutriaux, Charles [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Patchett, John [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Williams, Sean [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Shipman, Galen [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Miller, Ross [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Steed, Chad [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Krishnan, Harinarayan [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Silva, Claudio [NYU Polytechnic School of Engineering, New York, NY (United States); Chaudhary, Aashish [Kitware, Inc., Clifton Park, NY (United States); Bremer, Peer-Timo [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Pugmire, David [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Bethel, E. Wes [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Childs, Hank [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Prabhat, Mr. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Geveci, Berk [Kitware, Inc., Clifton Park, NY (United States); Bauer, Andrew [Kitware, Inc., Clifton Park, NY (United States); Pletzer, Alexander [Tech-X Corp., Boulder, CO (United States); Poco, Jorge [NYU Polytechnic School of Engineering, New York, NY (United States); Ellqvist, Tommy [NYU Polytechnic School of Engineering, New York, NY (United States); Santos, Emanuele [Federal Univ. of Ceara, Fortaleza (Brazil); Potter, Gerald [NASA Johnson Space Center, Houston, TX (United States); Smith, Brian [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Maxwell, Thomas [NASA Johnson Space Center, Houston, TX (United States); Kindig, David [Tech-X Corp., Boulder, CO (United States); Koop, David [NYU Polytechnic School of Engineering, New York, NY (United States)

    2013-05-01

    To support interactive visualization and analysis of complex, large-scale climate data sets, UV-CDAT integrates a powerful set of scientific computing libraries and applications to foster more efficient knowledge discovery. Connected through a provenance framework, the UV-CDAT components can be loosely coupled for fast integration or tightly coupled for greater functionality and communication with other components. This framework addresses many challenges in the interactive visual analysis of distributed large-scale data for the climate community.

  16. 3D Visualization Tools to Support Soil Management In Relation to Sustainable Agriculture and Ecosystem Services

    Science.gov (United States)

    Wang, Chen

    2017-04-01

    Visualization tools [1][2][6] have been used increasingly as part of information, consultation, and collaboration in relation to issues of global significance. Visualization techniques can be used in a variety of different settings, depending on their association with specific types of decision. Initially, they can be used to improve awareness of the local community and landscape, either individually or in groups [5]. They can also be used to communicate different aspects of change, such as digital soil mapping, ecosystem services and climate change [7][8]. A prototype 3D model was developed to present Tarland Catchment on the North East Scotland which includes 1:25000 soil map data and 1:50000 land capability for agriculture (LCA) data [4]. The model was used to identify issues arising between the growing interest soil monitoring and management, and the potential effects on existing soil characteristics. The online model was also created which can capture user/stakeholder comments they associate with soil features. In addition, people are located physically within the real-world bounds of the current soil management scenario, they can use Augmented Reality to see the scenario overlaid on their immediate surroundings. Models representing alternative soil use and management were used in the virtual landscape theatre (VLT) [3]with electronic voting designed to elicit public aspirations and concerns regarding future soil uses, and to develop scenarios driven by local input. Preliminary findings suggest positive audience responses to the relevance of the inclusion of soil data within a scene when considering questions regarding the impact of land-use change, such as woodland, agricultural land and open spaces. A future development is the use of the prototype virtual environment in a preference survey of scenarios of changes in land use, and in stakeholder consultations on such changes.END Rua, H. and Alvito, P. (2011) Living the past: 3D models, virtual reality and

  17. Gas discharge visualization: an imaging and modeling tool for medical biometrics.

    Science.gov (United States)

    Kostyuk, Nataliya; Cole, Phyadragren; Meghanathan, Natarajan; Isokpehi, Raphael D; Cohly, Hari H P

    2011-01-01

    The need for automated identification of a disease makes the issue of medical biometrics very current in our society. Not all biometric tools available provide real-time feedback. We introduce gas discharge visualization (GDV) technique as one of the biometric tools that have the potential to identify deviations from the normal functional state at early stages and in real time. GDV is a nonintrusive technique to capture the physiological and psychoemotional status of a person and the functional status of different organs and organ systems through the electrophotonic emissions of fingertips placed on the surface of an impulse analyzer. This paper first introduces biometrics and its different types and then specifically focuses on medical biometrics and the potential applications of GDV in medical biometrics. We also present our previous experience with GDV in the research regarding autism and the potential use of GDV in combination with computer science for the potential development of biological pattern/biomarker for different kinds of health abnormalities including cancer and mental diseases.

  18. Listening to the solar eclipse with an educational tool for the blind and visually impaired

    Science.gov (United States)

    Bieryla, Allyson; Diaz-Merced, Wanda; Davis, Daniel; Hart, Robert

    2018-01-01

    The Great American Solar Eclipse took place on August 21, 2017 and swept through 14 of the United States. This was a highly publicized event and much of the world took notice. We live in a time where everything is accessible via the internet as it is happening. Many people, even those outside of the eclipse path, wanted to experience the event in real-time. We built a device, using an Arduino compatible microcontroller, that converts sunlight to sound so that the blind and visually impaired community could experience the eclipse live with the rest of the world. The device has a high dynamic range light sensor and an audio output that connects to a webcam and a computer. The event was successfully streamed to YouTube from Jackson Hole, Wyoming and people from all around the world connected to listen as the sun was temporarily dimmed by the eclipse of the moon. This device is inexpensive to reproduce (< $40 per device) and can be used as a teaching tool in a lab or classroom setting. Students can learn to build and write code for these devices as well. This is a tool with great potential for human development.

  19. AceTree: a tool for visual analysis of Caenorhabditis elegans embryogenesis

    Directory of Open Access Journals (Sweden)

    Araya Carlos L

    2006-06-01

    Full Text Available Abstract Background The invariant lineage of the nematode Caenorhabditis elegans has potential as a powerful tool for the description of mutant phenotypes and gene expression patterns. We previously described procedures for the imaging and automatic extraction of the cell lineage from C. elegans embryos. That method uses time-lapse confocal imaging of a strain expressing histone-GFP fusions and a software package, StarryNite, processes the thousands of images and produces output files that describe the location and lineage relationship of each nucleus at each time point. Results We have developed a companion software package, AceTree, which links the images and the annotations using tree representations of the lineage. This facilitates curation and editing of the lineage. AceTree also contains powerful visualization and interpretive tools, such as space filling models and tree-based expression patterning, that can be used to extract biological significance from the data. Conclusion By pairing a fast lineaging program written in C with a user interface program written in Java we have produced a powerful software suite for exploring embryonic development.

  20. Visualization tool for three-dimensional plasma velocity distributions (ISEE_3D) as a plug-in for SPEDAS

    Science.gov (United States)

    Keika, Kunihiro; Miyoshi, Yoshizumi; Machida, Shinobu; Ieda, Akimasa; Seki, Kanako; Hori, Tomoaki; Miyashita, Yukinaga; Shoji, Masafumi; Shinohara, Iku; Angelopoulos, Vassilis; Lewis, Jim W.; Flores, Aaron

    2017-12-01

    This paper introduces ISEE_3D, an interactive visualization tool for three-dimensional plasma velocity distribution functions, developed by the Institute for Space-Earth Environmental Research, Nagoya University, Japan. The tool provides a variety of methods to visualize the distribution function of space plasma: scatter, volume, and isosurface modes. The tool also has a wide range of functions, such as displaying magnetic field vectors and two-dimensional slices of distributions to facilitate extensive analysis. The coordinate transformation to the magnetic field coordinates is also implemented in the tool. The source codes of the tool are written as scripts of a widely used data analysis software language, Interactive Data Language, which has been widespread in the field of space physics and solar physics. The current version of the tool can be used for data files of the plasma distribution function from the Geotail satellite mission, which are publicly accessible through the Data Archives and Transmission System of the Institute of Space and Astronautical Science (ISAS)/Japan Aerospace Exploration Agency (JAXA). The tool is also available in the Space Physics Environment Data Analysis Software to visualize plasma data from the Magnetospheric Multiscale and the Time History of Events and Macroscale Interactions during Substorms missions. The tool is planned to be applied to data from other missions, such as Arase (ERG) and Van Allen Probes after replacing or adding data loading plug-ins. This visualization tool helps scientists understand the dynamics of space plasma better, particularly in the regions where the magnetohydrodynamic approximation is not valid, for example, the Earth's inner magnetosphere, magnetopause, bow shock, and plasma sheet.

  1. EEGNET: An Open Source Tool for Analyzing and Visualizing M/EEG Connectome.

    Science.gov (United States)

    Hassan, Mahmoud; Shamas, Mohamad; Khalil, Mohamad; El Falou, Wassim; Wendling, Fabrice

    2015-01-01

    The brain is a large-scale complex network often referred to as the "connectome". Exploring the dynamic behavior of the connectome is a challenging issue as both excellent time and space resolution is required. In this context Magneto/Electroencephalography (M/EEG) are effective neuroimaging techniques allowing for analysis of the dynamics of functional brain networks at scalp level and/or at reconstructed sources. However, a tool that can cover all the processing steps of identifying brain networks from M/EEG data is still missing. In this paper, we report a novel software package, called EEGNET, running under MATLAB (Math works, inc), and allowing for analysis and visualization of functional brain networks from M/EEG recordings. EEGNET is developed to analyze networks either at the level of scalp electrodes or at the level of reconstructed cortical sources. It includes i) Basic steps in preprocessing M/EEG signals, ii) the solution of the inverse problem to localize / reconstruct the cortical sources, iii) the computation of functional connectivity among signals collected at surface electrodes or/and time courses of reconstructed sources and iv) the computation of the network measures based on graph theory analysis. EEGNET is the unique tool that combines the M/EEG functional connectivity analysis and the computation of network measures derived from the graph theory. The first version of EEGNET is easy to use, flexible and user friendly. EEGNET is an open source tool and can be freely downloaded from this webpage: https://sites.google.com/site/eegnetworks/.

  2. An image-guided radiotherapy decision support framework incorporating a Bayesian network and visualization tool.

    Science.gov (United States)

    Hargrave, Catriona; Deegan, Timothy; Bednarz, Tomasz; Poulsen, Michael; Harden, Fiona; Mengersen, Kerrie

    2018-05-17

    To describe a Bayesian network (BN) and complementary visualization tool that aim to support decision-making during online cone-beam computed tomography (CBCT)-based image-guided radiotherapy (IGRT) for prostate cancer patients. The BN was created to represent relationships between observed prostate, proximal seminal vesicle (PSV), bladder and rectum volume variations, an image feature alignment score (FAS TV _ OAR ), delivered dose, and treatment plan compliance (TPC). Variables influencing tumor volume (TV) targeting accuracy such as intrafraction motion, and contouring and couch shift errors were also represented. A score of overall TPC (FAS global ) and factors such as image quality were used to inform the BN output node providing advice about proceeding with treatment. The BN was quantified using conditional probabilities generated from published studies, FAS TV _ OAR /global modeling, and a survey of IGRT decision-making practices. A new IGRT visualization tool (IGRT REV ), in the form of Mollweide projection plots, was developed to provide a global summary of residual errors after online CBCT-planning CT registration. Sensitivity and scenario analyses were undertaken to evaluate the performance of the BN and the relative influence of the network variables on TPC and the decision to proceed with treatment. The IGRT REV plots were evaluated in conjunction with the BN scenario testing, using additional test data generated from retrospective CBCT-planning CT soft-tissue registrations for 13/36 patients whose data were used in the FAS TV _ OAR /global modeling. Modeling of the TV targeting errors resulted in a very low probability of corrected distances between the CBCT and planning CT prostate or PSV volumes being within their thresholds. Strength of influence evaluation with and without the BN TV targeting error nodes indicated that rectum- and bladder-related network variables had the highest relative importance. When the TV targeting error nodes were excluded

  3. Visualization in simulation tools: requirements and a tool specification to support the teaching of dynamic biological processes.

    Science.gov (United States)

    Jørgensen, Katarina M; Haddow, Pauline C

    2011-08-01

    Simulation tools are playing an increasingly important role behind advances in the field of systems biology. However, the current generation of biological science students has either little or no experience with such tools. As such, this educational glitch is limiting both the potential use of such tools as well as the potential for tighter cooperation between the designers and users. Although some simulation tool producers encourage their use in teaching, little attempt has hitherto been made to analyze and discuss their suitability as an educational tool for noncomputing science students. In general, today's simulation tools assume that the user has a stronger mathematical and computing background than that which is found in most biological science curricula, thus making the introduction of such tools a considerable pedagogical challenge. This paper provides an evaluation of the pedagogical attributes of existing simulation tools for cell signal transduction based on Cognitive Load theory. Further, design recommendations for an improved educational simulation tool are provided. The study is based on simulation tools for cell signal transduction. However, the discussions are relevant to a broader biological simulation tool set.

  4. Image Processing Tools for Improved Visualization and Analysis of Remotely Sensed Images for Agriculture and Forest Classifications

    OpenAIRE

    SINHA G. R.

    2017-01-01

    This paper suggests Image Processing tools for improved visualization and better analysis of remotely sensed images. There are methods already available in literature for the purpose but the most important challenge among the limitations is lack of robustness. We propose an optimal method for image enhancement of the images using fuzzy based approaches and few optimization tools. The segmentation images subsequently obtained after de-noising will be classified into distinct information and th...

  5. A novel tool to predict food intake: the Visual Meal Creator.

    Science.gov (United States)

    Holliday, Adrian; Batey, Chris; Eves, Frank F; Blannin, Andrew K

    2014-08-01

    Subjective appetite is commonly measured using an abstract visual analogue scale (VAS) technique, that provides no direct information about desired portion size or food choice. The purpose of this investigation was to develop and validate a user-friendly tool - the Visual Meal Creator (VIMEC) - that would allow for independent, repeated measures of subjective appetite and provide a prediction of food intake. Twelve participants experienced dietary control over a 5-hour period to manipulate hunger state on three occasions (small breakfast (SB) vs. large breakfast (LB) vs. large breakfast + snacks (LB+S)). Appetite measures were obtained every 60 minutes using the VIMEC and VAS. At 4.5 hours, participants were presented with an ad libitum test meal, from which energy intake (EI) was measured. The efficacy of the VIMEC was assessed by its ability to detect expected patterns of appetite and its strength as a predictor of energy intake. Day-to-day reproducibility and test-retest repeatability were assessed. Between- and within-condition differences in VAS and VIMEC scores (represented as mm and kcal of the "created" meal, respectively) were significantly correlated with one another throughout. Between- and within-condition changes in appetite scores obtained with the VIMEC exhibited a stronger correlation with EI at the test meal than those obtained with VAS. Pearson correlation coefficients for within-condition comparisons were 0.951, 0.914 and 0.875 (all p < 0.001) for SB, LB and LB+S respectively. Correlation coefficients for between-condition differences in VIMEC and EI were 0.273, 0.940 (p < 0.001) and 0.525 (p < 0.05) for SB - LB+S, SB - LB and LB - LB+S respectively. The VIMEC exhibited a similar degree of reproducibility to VAS. These findings suggest that the VIMEC appears to be a stronger predictor of energy intake than VAS. Copyright © 2014 Elsevier Ltd. All rights reserved.

  6. Self and Peer Assessment and Dominance During Group Work Using Online Visual Tools

    Directory of Open Access Journals (Sweden)

    Ed Lester

    2010-11-01

    Full Text Available An experiment undertaken with engineering undergraduate students at the University of Nottingham involved 26 groups of three being filmed during a study using a virtual-reality-based problem-solving exercise. After the exercise, each individual filled in a questionnaire relating to the exercise which allowed them to score themselves and their peers for contribution and overall grade. The comparing of video evidence with perceived contributions made it possible to observe patterns of behaviour based on temperament dominance. This ‘dominance’ was based on two simple parameters extracted from an electronic version of the Myers-Briggs test: first, the time taken to complete the study, called ‘decisiveness’, and secondly, the degree of Extroversion/Introversion. The more decisive subjects received higher marks from their peers, despite the absence of any video evidence that they had actually contributed more than their peers. The most dominant extroverts appear to ‘do more’ with respect to the physical operation of the mouse/keyboard and interaction with the visual simulation during the virtual-reality exercise. However, there was no link with these simple temperament measures with the degree of enjoyment of the tasks, which appeared to be highly consistent. The authors do not argue that visual-media tools, such as the virtual-reality environment described in this article, might offer solutions to problems associated with group work in engineering, but rather that information regarding the character traits of the participants may help to create more effective teams and to help understand the inter-personal dynamics within teams undertaking such tasks.

  7. Visual DMDX: A web-based authoring tool for DMDX, a Windows display program with millisecond accuracy.

    Science.gov (United States)

    Garaizar, Pablo; Reips, Ulf-Dietrich

    2015-09-01

    DMDX is a software package for the experimental control and timing of stimulus display for Microsoft Windows systems. DMDX is reliable, flexible, millisecond accurate, and can be downloaded free of charge; therefore it has become very popular among experimental researchers. However, setting up a DMDX-based experiment is burdensome because of its command-based interface. Further, DMDX relies on RTF files in which parts of the stimuli, design, and procedure of an experiment are defined in a complicated (DMASTR-compatible) syntax. Other experiment software, such as E-Prime, Psychopy, and WEXTOR, became successful as a result of integrated visual authoring tools. Such an intuitive interface was lacking for DMDX. We therefore created and present here Visual DMDX (http://visualdmdx.com/), a HTML5-based web interface to set up experiments and export them to DMDX item files format in RTF. Visual DMDX offers most of the features available from the rich DMDX/DMASTR syntax, and it is a useful tool to support researchers who are new to DMDX. Both old and modern versions of DMDX syntax are supported. Further, with Visual DMDX, we go beyond DMDX by having added export to JSON (a versatile web format), easy backup, and a preview option for experiments. In two examples, one experiment each on lexical decision making and affective priming, we explain in a step-by-step fashion how to create experiments using Visual DMDX. We release Visual DMDX under an open-source license to foster collaboration in its continuous improvement.

  8. PRI-CAT: a web-tool for the analysis, storage and visualization of plant ChIP-seq experiments.

    NARCIS (Netherlands)

    Muino, J.M.; Hoogstraat, M.; Ham, van R.C.H.J.; Dijk, van A.D.J.

    2011-01-01

    Although several tools for the analysis of ChIP-seq data have been published recently, there is a growing demand, in particular in the plant research community, for computational resources with which such data can be processed, analyzed, stored, visualized and integrated within a single,

  9. The Effect of Using a Visual Representation Tool in a Teaching-Learning Sequence for Teaching Newton's Third Law

    Science.gov (United States)

    Savinainen, Antti; Mäkynen, Asko; Nieminen, Pasi; Viiri, Jouni

    2017-01-01

    This paper presents a research-based teaching-learning sequence (TLS) that focuses on the notion of interaction in teaching Newton's third law (N3 law) which is, as earlier studies have shown, a challenging topic for students to learn. The TLS made systematic use of a visual representation tool--an interaction diagram (ID)--highlighting…

  10. MyView2, a new visualization software tool for analysis of LHD data

    International Nuclear Information System (INIS)

    Moon, Chanho; Yoshinuma, Mikirou; Emoto, Masahiko; Ida, Katsumi

    2016-01-01

    The Large Helical Device (LHD) at the National Institute for Fusion Science (NIFS) is the world’s largest superconducting helical fusion device, providing a scientific research center to elucidate important physics research such as plasma transport, turbulence dynamics, and other topics. Furthermore, many types of advanced diagnostic devices are used to measure the confinement plasma characteristics, and these valuable physical data are registered over the 131,000 discharges in the LHD database. However, it is difficult to investigate the experimental data even though much physical data has been registered. In order to improve the efficiency for investigating plasma physics in LHD, we have developed a new data visualization software, MyView2, which consists of Python-based modules that can be easily set up and updated. MyView2 provides immediate access to experimental results, cross-shot analysis, and a collaboration point for scientific research. In particular, the MyView2 software is a portable structure for making viewable LHD experimental data in on- and off-site web servers, which is a capability not previously available in any general use tool. We will also discuss the benefits of using the MyView2 software for in-depth analysis of LHD experimental data.

  11. Efficient Delivery and Visualization of Long Time-Series Datasets Using Das2 Tools

    Science.gov (United States)

    Piker, C.; Granroth, L.; Faden, J.; Kurth, W. S.

    2017-12-01

    For over 14 years the University of Iowa Radio and Plasma Wave Group has utilized a network transparent data streaming and visualization system for most daily data review and collaboration activities. This system, called Das2, was originally designed in support of the Cassini Radio and Plasma Wave Science (RPWS) investigation, but is now relied on for daily review and analysis of Voyager, Polar, Cluster, Mars Express, Juno and other mission results. In light of current efforts to promote automatic data distribution in space physics it seems prudent to provide an overview of our open source Das2 programs and interface definitions to the wider community and to recount lessons learned. This submission will provide an overview of interfaces that define the system, describe the relationship between the Das2 effort and Autoplot and will examine handling Cassini RPWS Wideband waveforms and dynamic spectra as examples of dealing with long time-series data sets. In addition, the advantages and limitations of the current Das2 tool set will be discussed, as well as lessons learned that are applicable to other data sharing initiatives. Finally, plans for future developments including improved catalogs to support 'no-software' data sources and redundant multi-server fail over, as well as new adapters for CSV (Comma Separated Values) and JSON (Javascript Object Notation) output to support Cassini closeout and the HAPI (Heliophysics Application Programming Interface) initiative are outlined.

  12. E-infocenter, a visual tool for project management in educational robotics using web technologies

    Directory of Open Access Journals (Sweden)

    Kathia Pittí Patiño

    2012-07-01

    Full Text Available Normal.dotm 0 0 1 147 838 Universidad de Salamanca 6 1 1029 12.0 0 false 18 pt 18 pt 0 0 false false false /* Style Definitions */ table.MsoNormalTable {mso-style-name:"Table Normal"; mso-tstyle-rowband-size:0; mso-tstyle-colband-size:0; mso-style-noshow:yes; mso-style-parent:""; mso-padding-alt:0cm 5.4pt 0cm 5.4pt; mso-para-margin-top:0cm; mso-para-margin-right:0cm; mso-para-margin-bottom:10.0pt; mso-para-margin-left:0cm; line-height:115%; mso-pagination:widow-orphan; font-size:12.0pt; font-family:"Times New Roman"; mso-ascii-font-family:Calibri; mso-ascii-theme-font:minor-latin; mso-fareast-font-family:"Times New Roman"; mso-fareast-theme-font:minor-fareast; mso-hansi-font-family:Calibri; mso-hansi-theme-font:minor-latin;} Internet applications and educational robotics are technologies that are characterized by their relatively novelty and motivating character. They are the ideal setting for the application of active teaching methods. The project-based learning is considered as one of the most attractive of these teaching methods. Under our approach, the projects with robots makes use of the Web 2.0 collaborative environment, so this one will be considered as student support tool. In this way they can develop many skills that are easily transferable to the work-market. In this paper, an online visual tool called E-infocenter is described. We will show the developed selection process, the design and the implementation of the mentioned project management. This tool has been used for the first time for six weeks in the workshop “Vehicles LEGO NXT” that is, an experience dedicated to children aged between 8 and 15 years. The benefits perceived by the participants have been at management level, emotional and collaboration.

  13. Sinistrals are rarely ‘right’: evidence from tool­-affordance processing in visual half-­field paradigms

    Directory of Open Access Journals (Sweden)

    Bartosz eMichałowski

    2015-03-01

    Full Text Available Although current neuroscience and behavioral studies provide substantial understanding of tool representations (e.g., the processing of tool-­related affordances in the human brain, most of this knowledge is limited to right-handed individuals with typical organization of cognitive and manual skills. Therefore, any insights from these lines of research may be of little value in rehabilitation of patients with atypical laterality of praxis and/or hand dominance. To fill this gap, we tested perceptual processing of man­-made objects in 18 healthy left-­handers who were likely to show greater incidence of right-sided or bilateral (atypical lateralization of functions. In the two experiments reported here, participants performed a tool vs. non-­tool categorization task. In Exp. 1, target and distracter objects were presented for 200 ms in the left (LVF or right (RVF visual field, followed by 200ms masks. In Exp. 2, the centrally presented targets were preceded by masked primes of 35ms duration, again presented in the LVF or RVF. Based on results from both studies, i.e., response times to correctly discriminated stimuli irrespective of their category, participants were divided into two groups showing privileged processing in either left (N = 9 or right (N = 9 visual field. In Exp. 1, only individuals with RVF advantage showed significantly faster categorization of tools in their dominant visual field, whereas those with LVF advantage revealed merely a trend towards such an effect. In Exp. 2, when targets were preceded by identical primes, the ‘atypical’ group showed significantly facilitated categorization of non­-tools, whereas the ‘typical’ group demonstrated a trend towards faster categorization of tools. These results indicate that in subjects with atypically organized cognitive skills, tool­-related processes are not just mirror reversed. Thus, our outcomes call for particular caution in neurorehabilitation directed at left

  14. High-volume image quality assessment systems: tuning performance with an interactive data visualization tool

    Science.gov (United States)

    Bresnahan, Patricia A.; Pukinskis, Madeleine; Wiggins, Michael

    1999-03-01

    Image quality assessment systems differ greatly with respect to the number and types of mags they need to evaluate, and their overall architectures. Managers of these systems, however, all need to be able to tune and evaluate system performance, requirements often overlooked or under-designed during project planning. Performance tuning tools allow users to define acceptable quality standards for image features and attributes by adjusting parameter settings. Performance analysis tools allow users to evaluate and/or predict how well a system performs in a given parameter state. While image assessment algorithms are becoming quite sophisticated, duplicating or surpassing the human decision making process in their speed and reliability, they often require a greater investment in 'training' or fine tuning of parameters in order to achieve optimum performance. This process may involve the analysis of hundreds or thousands of images, generating a large database of files and statistics that can be difficult to sort through and interpret. Compounding the difficulty is the fact that personnel charged with tuning and maintaining the production system may not have the statistical or analytical background required for the task. Meanwhile, hardware innovations have greatly increased the volume of images that can be handled in a given time frame, magnifying the consequences of running a production site with an inadequately tuned system. In this paper, some general requirements for a performance evaluation and tuning data visualization system are discussed. A custom engineered solution to the tuning and evaluation problem is then presented, developed within the context of a high volume image quality assessment, data entry, OCR, and image archival system. A key factor influencing the design of the system was the context-dependent definition of image quality, as perceived by a human interpreter. This led to the development of a five-level, hierarchical approach to image quality

  15. Visual Analysis as a design and decision-making tool in the development of a quarry

    Science.gov (United States)

    Randall Boyd Fitzgerald

    1979-01-01

    In order to obtain local and state government approvals, an environmental impact analysis of the mining and reclamation of a proposed hard rock quarry was required. High visibility of the proposed mining area from the adjacent community required a visual impact analysis in the planning and design of the project. The Visual Analysis defined design criteria for the...

  16. Improving Readability of an Evaluation Tool for Low-Income Clients Using Visual Information Processing Theories

    Science.gov (United States)

    Townsend, Marilyn S.; Sylva, Kathryn; Martin, Anna; Metz, Diane; Wooten-Swanson, Patti

    2008-01-01

    Literacy is an issue for many low-income audiences. Using visual information processing theories, the goal was improving readability of a food behavior checklist and ultimately improving its ability to accurately capture existing changes in dietary behaviors. Using group interviews, low-income clients (n = 18) evaluated 4 visual styles. The text…

  17. A nursing home staff tool for the indoor visual environment : the content validity

    NARCIS (Netherlands)

    Sinoo, M.M.; Kort, H.S.M.; Loomans, M.G.L.C.; Schols, J.M.G.A.

    2016-01-01

    In the Netherlands, over 40% of nursing home residents are estimated to have visual impairments. This results in the loss of basic visual abilities. The nursing home environment fits more or less to residents’ activities and social participation. This is referred to as environmental fit. To raise

  18. A nursing home staff tool for the indoor visual environment: The content validity

    NARCIS (Netherlands)

    Marcel G.L.C. Loomans; Dr. H.S.M. Kort; Marianne M. Sinoo; Jos M.G.A Schols

    2016-01-01

    In the Netherlands, over 40% of nursing home residents are estimated to have visual impairments. This results in the loss of basic visual abilities. The nursing home environment fits more or less to residents’ activities and social participation. This is referred to as environmental fit. To raise

  19. Book4All: A Tool to Make an e-Book More Accessible to Students with Vision/Visual-Impairments

    Science.gov (United States)

    Calabrò, Antonello; Contini, Elia; Leporini, Barbara

    Empowering people who are blind or otherwise visually impaired includes ensuring that products and electronic materials incorporate a broad range of accessibility features and work well with screen readers and other assistive technology devices. This is particularly important for students with vision impairments. Unfortunately, authors and publishers often do not include specific criteria when preparing the contents. Consequently, e-books can be inadequate for blind and low vision users, especially for students. In this paper we describe a semi-automatic tool developed to support operators who adapt e-documents for visually impaired students. The proposed tool can be used to convert a PDF e-book into a more suitable accessible and usable format readable on desktop computer or on mobile devices.

  20. An Excel®-based visualization tool of 2-D soil gas concentration profiles in petroleum vapor intrusion.

    Science.gov (United States)

    Verginelli, Iason; Yao, Yijun; Suuberg, Eric M

    2016-01-01

    In this study we present a petroleum vapor intrusion tool implemented in Microsoft ® Excel ® using Visual Basic for Applications (VBA) and integrated within a graphical interface. The latter helps users easily visualize two-dimensional soil gas concentration profiles and indoor concentrations as a function of site-specific conditions such as source strength and depth, biodegradation reaction rate constant, soil characteristics and building features. This tool is based on a two-dimensional explicit analytical model that combines steady-state diffusion-dominated vapor transport in a homogeneous soil with a piecewise first-order aerobic biodegradation model, in which rate is limited by oxygen availability. As recommended in the recently released United States Environmental Protection Agency's final Petroleum Vapor Intrusion guidance, a sensitivity analysis and a simplified Monte Carlo uncertainty analysis are also included in the spreadsheet.

  1. Visual dynamic e-module as a tool to fulfill informational needs and care continuum for diabetic patients

    Directory of Open Access Journals (Sweden)

    Mohan Shinde

    2015-01-01

    Full Text Available Introduction: Diabetes can be envisaged as a lifelong phenomenon having the ominous odds for multisystemic involvement in the duration of disease. The probabilities of the occurrence of these events are influenced by the adopted lifestyle. Hence, information about the disease and lifestyle modification are vital from the perspective of prognostics. This study attempts to explore the potential of a "visual dynamic tool" for imparting knowledge and consequently  received acumen by diabetic patients. Objectives: To appraise the effectiveness of a constructed visual dynamic module (encompassing the various dimensions related to and affected by diabetes by capturing the opinions, perceptions, and experiences of the diabetic patients who underwent intervention through the module. Materials and Methods: A visual e-module with dynamically imposed and animated images in the vernacular (Hindi was prepared. This module was instituted among the diabetic patients in a logical sequence for consecutive 3 days. All the diabetic patients who underwent this intervention were interviewed in depth in order to ascertain the effectiveness of the module. These interviews were analyzed by thematic and framework analyses. Result: The visual module was perceived by the diabetic patients as an optically engaging tool for receiving, connecting, and synthesizing information about diabetes. They sensed and expressed the ease to connect with the images and labeled the received information as inclusive. Conclusion: Initial evidences suggest that visual e-module is an effective and efficient tool for knowledge management in diabetes. This issue may be further explored at diverse academic and clinical settings for gathering more information for efficacy.

  2. Phylo-mLogo: an interactive and hierarchical multiple-logo visualization tool for alignment of many sequences

    Directory of Open Access Journals (Sweden)

    Lee DT

    2007-02-01

    Full Text Available Abstract Background When aligning several hundreds or thousands of sequences, such as epidemic virus sequences or homologous/orthologous sequences of some big gene families, to reconstruct the epidemiological history or their phylogenies, how to analyze and visualize the alignment results of many sequences has become a new challenge for computational biologists. Although there are several tools available for visualization of very long sequence alignments, few of them are applicable to the alignments of many sequences. Results A multiple-logo alignment visualization tool, called Phylo-mLogo, is presented in this paper. Phylo-mLogo calculates the variabilities and homogeneities of alignment sequences by base frequencies or entropies. Different from the traditional representations of sequence logos, Phylo-mLogo not only displays the global logo patterns of the whole alignment of multiple sequences, but also demonstrates their local homologous logos for each clade hierarchically. In addition, Phylo-mLogo also allows the user to focus only on the analysis of some important, structurally or functionally constrained sites in the alignment selected by the user or by built-in automatic calculation. Conclusion With Phylo-mLogo, the user can symbolically and hierarchically visualize hundreds of aligned sequences simultaneously and easily check the changes of their amino acid sites when analyzing many homologous/orthologous or influenza virus sequences. More information of Phylo-mLogo can be found at URL http://biocomp.iis.sinica.edu.tw/phylomlogo.

  3. An EcologicalVisual Exploration Tool to Support the Analysis of Visual Processing Pathways in Children with Autism Spectrum Disorders

    Directory of Open Access Journals (Sweden)

    Dario Cazzato

    2017-12-01

    Full Text Available Recent improvements in the field of assistive technologies have led to innovative solutions aiming at increasing the capabilities of people with disability, helping them in daily activities with applications that span from cognitive impairments to developmental disabilities. In particular, in the case of Autism Spectrum Disorder (ASD, the need to obtain active feedback in order to extract subsequently meaningful data becomes of fundamental importance. In this work, a study about the possibility of understanding the visual exploration in children with ASD is presented. In order to obtain an automatic evaluation, an algorithm for free (i.e., without constraints, nor using additional hardware, infrared (IR light sources or other intrusive methods gaze estimation is employed. Furthermore, no initial calibration is required. It allows the user to freely rotate the head in the field of view of the sensor, and it is insensitive to the presence of eyeglasses, hats or particular hairstyles. These relaxations of the constraints make this technique particularly suitable to be used in the critical context of autism, where the child is certainly not inclined to employ invasive devices, nor to collaborate during calibration procedures.The evaluation of children’s gaze trajectories through the proposed solution is presented for the purpose of an Early Start Denver Model (ESDM program built on the child’s spontaneous interests and game choice delivered in a natural setting.

  4. Visual exploration and analysis of ionospheric scintillation monitoring data: The ISMR Query Tool

    Science.gov (United States)

    Vani, Bruno César; Shimabukuro, Milton Hirokazu; Galera Monico, João Francisco

    2017-07-01

    Ionospheric Scintillations are rapid variations on the phase and/or amplitude of a radio signal as it passes through ionospheric plasma irregularities. The ionosphere is a specific layer of the Earth's atmosphere located approximately between 50 km and 1000 km above the Earth's surface. As Global Navigation Satellite Systems (GNSS) - such as GPS, Galileo, BDS and GLONASS - use radio signals, these variations degrade their positioning service quality. Due to its location, Brazil is one of the places most affected by scintillation in the world. For that reason, ionosphere monitoring stations have been deployed over Brazilian territory since 2011 through cooperative projects between several institutions in Europe and Brazil. Such monitoring stations compose a network that generates a large amount of monitoring data everyday. GNSS receivers deployed at these stations - named Ionospheric Scintillation Monitor Receivers (ISMR) - provide scintillation indices and related signal metrics for available satellites dedicated to satellite-based navigation and positioning services. With this monitoring infrastructure, more than ten million observation values are generated and stored every day. Extracting the relevant information from this huge amount of data was a hard process and required the expertise of computer and geoscience scientists. This paper describes the concepts, design and aspects related to the implementation of the software that has been supporting research on ISMR data - the so-called ISMR Query Tool. Usability and other aspects are also presented via examples of application. This web based software has been designed and developed aiming to ensure insights over the huge amount of ISMR data that is fetched every day on an integrated platform. The software applies and adapts time series mining and information visualization techniques to extend the possibilities of exploring and analyzing ISMR data. The software is available to the scientific community through the

  5. Analysis and Visualization Tool for Targeted Amplicon Bisulfite Sequencing on Ion Torrent Sequencers.

    Directory of Open Access Journals (Sweden)

    Stephan Pabinger

    Full Text Available Targeted sequencing of PCR amplicons generated from bisulfite deaminated DNA is a flexible, cost-effective way to study methylation of a sample at single CpG resolution and perform subsequent multi-target, multi-sample comparisons. Currently, no platform specific protocol, support, or analysis solution is provided to perform targeted bisulfite sequencing on a Personal Genome Machine (PGM. Here, we present a novel tool, called TABSAT, for analyzing targeted bisulfite sequencing data generated on Ion Torrent sequencers. The workflow starts with raw sequencing data, performs quality assessment, and uses a tailored version of Bismark to map the reads to a reference genome. The pipeline visualizes results as lollipop plots and is able to deduce specific methylation-patterns present in a sample. The obtained profiles are then summarized and compared between samples. In order to assess the performance of the targeted bisulfite sequencing workflow, 48 samples were used to generate 53 different Bisulfite-Sequencing PCR amplicons from each sample, resulting in 2,544 amplicon targets. We obtained a mean coverage of 282X using 1,196,822 aligned reads. Next, we compared the sequencing results of these targets to the methylation level of the corresponding sites on an Illumina 450k methylation chip. The calculated average Pearson correlation coefficient of 0.91 confirms the sequencing results with one of the industry-leading CpG methylation platforms and shows that targeted amplicon bisulfite sequencing provides an accurate and cost-efficient method for DNA methylation studies, e.g., to provide platform-independent confirmation of Illumina Infinium 450k methylation data. TABSAT offers a novel way to analyze data generated by Ion Torrent instruments and can also be used with data from the Illumina MiSeq platform. It can be easily accessed via the Platomics platform, which offers a web-based graphical user interface along with sample and parameter storage

  6. VisPortal: Deploying grid-enabled visualization tools through a web-portal interface

    Energy Technology Data Exchange (ETDEWEB)

    Bethel, Wes; Siegerist, Cristina; Shalf, John; Shetty, Praveenkumar; Jankun-Kelly, T.J.; Kreylos, Oliver; Ma, Kwan-Liu

    2003-06-09

    The LBNL/NERSC Visportal effort explores ways to deliver advanced Remote/Distributed Visualization (RDV) capabilities through a Grid-enabled web-portal interface. The effort focuses on latency tolerant distributed visualization algorithms, GUI designs that are more appropriate for the capabilities of web interfaces, and refactoring parallel-distributed applications to work in a N-tiered component deployment strategy. Most importantly, our aim is to leverage commercially-supported technology as much as possible in order to create a deployable, supportable, and hence viable platform for delivering grid-based visualization services to collaboratory users.

  7. Web-based Data Exploration, Exploitation and Visualization Tools for Satellite Sensor VIS/IR Calibration Applications

    Science.gov (United States)

    Gopalan, A.; Doelling, D. R.; Scarino, B. R.; Chee, T.; Haney, C.; Bhatt, R.

    2016-12-01

    The CERES calibration group at NASA/LaRC has developed and deployed a suite of online data exploration and visualization tools targeted towards a range of spaceborne VIS/IR imager calibration applications for the Earth Science community. These web-based tools are driven by the open-source R (Language for Statistical Computing and Visualization) with a web interface for the user to customize the results according to their application. The tool contains a library of geostationary and sun-synchronous imager spectral response functions (SRF), incoming solar spectra, SCIAMACHY and Hyperion Earth reflected visible hyper-spectral data, and IASI IR hyper-spectral data. The suite of six specific web-based tools was designed to provide critical information necessary for sensor cross-calibration. One of the challenges of sensor cross-calibration is accounting for spectral band differences and may introduce biases if not handled properly. The spectral band adjustment factors (SBAF) are a function of the earth target, atmospheric and cloud conditions or scene type and angular conditions, when obtaining sensor radiance pairs. The SBAF will need to be customized for each inter-calibration target and sensor pair. The advantages of having a community open source tool are: 1) only one archive of SCIAMACHY, Hyperion, and IASI datasets needs to be maintained, which is on the order of 50TB. 2) the framework will allow easy incorporation of new satellite SRFs and hyper-spectral datasets and associated coincident atmospheric and cloud properties, such as PW. 3) web tool or SBAF algorithm improvements or suggestions when incorporated can benefit the community at large. 4) The customization effort is on the user rather than on the host. In this paper we discuss each of these tools in detail and explore the variety of advanced options that can be used to constrain the results along with specific use cases to highlight the value-added by these datasets.

  8. A new tool for virtual scientific and autostereoscopic visualization of EAST

    International Nuclear Information System (INIS)

    Li, Dan; Xiao, B.J.; Xia, J.Y.; Wang, K.R.; Chen, S.L.; Luo, W.L.

    2016-01-01

    Highlights: • 3D effect of the virtual EAST has been improved and data visualization has been realized in the ASEAST system. • Interaction behavior is created that the users can get information from database. • The system integrates data acquisition, data visualization and model visualization. • QT libraries are adopted to realize the cross-platform and impressive graphical interface. • In order to manage the models, the web-based model manager system is constructed. - Abstract: The Experimental Advanced Superconducting Tokamak (EAST) Device began operation in 2006. EAST visualization work has been paid more and more attention for simulating its running state and inner structure. The VEAST system had been developed to display the 3D model of EAST facility and some diagnostic data based on Java3D. Compared with the VEAST system, a new system named autosterescopic scientific EAST (ASEAST) using C/S (Client/Server) structure in combination with the technology of OpenGL and an open-source software system for 3D computer graphics and visualization called VTK (Visualization Toolkit) and the Qt5 libraries for the graphical user interface (GUI) has been developed to improve the 3D effect of the virtual EAST and visualize the experimental data. The ASEAST can be used to get access to the information of EAST and physical properties. In addition, as a general system, ASEAST supports a wide variety of 3D formats. The visualization result can be output in the corresponding format of the input. In order to improve the rendering speed, we used the classic QEM algorithm to simplify the models in preprocess stage. As for the 3D effect, we made an investigation and the survey revealed that the system had good 3D effect.

  9. A new tool for virtual scientific and autostereoscopic visualization of EAST

    Energy Technology Data Exchange (ETDEWEB)

    Li, Dan, E-mail: lidan@ipp.ac.cn [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei, Anhui (China); Xiao, B.J.; Xia, J.Y.; Wang, K.R. [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei, Anhui (China); University of Science and Technology of China, Hefei, Anhui (China); Chen, S.L. [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei, Anhui (China); Luo, W.L. [709th Research lnstitute, China Shipbuilding lndustry Corporation, Wuhan, Hubei (China)

    2016-11-15

    Highlights: • 3D effect of the virtual EAST has been improved and data visualization has been realized in the ASEAST system. • Interaction behavior is created that the users can get information from database. • The system integrates data acquisition, data visualization and model visualization. • QT libraries are adopted to realize the cross-platform and impressive graphical interface. • In order to manage the models, the web-based model manager system is constructed. - Abstract: The Experimental Advanced Superconducting Tokamak (EAST) Device began operation in 2006. EAST visualization work has been paid more and more attention for simulating its running state and inner structure. The VEAST system had been developed to display the 3D model of EAST facility and some diagnostic data based on Java3D. Compared with the VEAST system, a new system named autosterescopic scientific EAST (ASEAST) using C/S (Client/Server) structure in combination with the technology of OpenGL and an open-source software system for 3D computer graphics and visualization called VTK (Visualization Toolkit) and the Qt5 libraries for the graphical user interface (GUI) has been developed to improve the 3D effect of the virtual EAST and visualize the experimental data. The ASEAST can be used to get access to the information of EAST and physical properties. In addition, as a general system, ASEAST supports a wide variety of 3D formats. The visualization result can be output in the corresponding format of the input. In order to improve the rendering speed, we used the classic QEM algorithm to simplify the models in preprocess stage. As for the 3D effect, we made an investigation and the survey revealed that the system had good 3D effect.

  10. Visualizing the Geography of the Diseases of China: Western Disease Maps from Analytical Tools to Tools of Empire, Sovereignty, and Public Health Propaganda, 1878-1929.

    Science.gov (United States)

    Hanson, Marta

    2017-09-01

    Argument This article analyzes for the first time the earliest western maps of diseases in China spanning fifty years from the late 1870s to the end of the 1920s. The 24 featured disease maps present a visual history of the major transformations in modern medicine from medical geography to laboratory medicine wrought on Chinese soil. These medical transformations occurred within new political formations from the Qing dynasty (1644-1911) to colonialism in East Asia (Hong Kong, Taiwan, Manchuria, Korea) and hypercolonialism within China (Tianjin, Shanghai, Amoy) as well as the new Republican Chinese nation state (1912-49). As a subgenre of persuasive graphics, physicians marshaled disease maps for various rhetorical functions within these different political contexts. Disease maps in China changed from being mostly analytical tools to functioning as tools of empire, national sovereignty, and public health propaganda legitimating new medical concepts, public health interventions, and political structures governing over human and non-human populations.

  11. Interactive web visualization tools to the results interpretation of a seismic risk study aimed at the emergency levels definition

    Science.gov (United States)

    Rivas-Medina, A.; Gutierrez, V.; Gaspar-Escribano, J. M.; Benito, B.

    2009-04-01

    Results of a seismic risk assessment study are often applied and interpreted by users unspecialised on the topic or lacking a scientific background. In this context, the availability of tools that help translating essentially scientific contents to broader audiences (such as decision makers or civil defence officials) as well as representing and managing results in a user-friendly fashion, are on indubitable value. On of such tools is the visualization tool VISOR-RISNA, a web tool developed within the RISNA project (financed by the Emergency Agency of Navarre, Spain) for regional seismic risk assessment of Navarre and the subsequent development of emergency plans. The RISNA study included seismic hazard evaluation, geotechnical characterization of soils, incorporation of site effects to expected ground motions, vulnerability distribution assessment and estimation of expected damage distributions for a 10% probability of exceedance in 50 years. The main goal of RISNA was the identification of higher risk area where focusing detailed, local-scale risk studies in the future and the corresponding urban emergency plans. A geographic information system was used to combine different information layers, generate tables of results and represent maps with partial and final results. The visualization tool VISOR-RISNA is intended to facilitate the interpretation and representation of the collection of results, with the ultimate purpose of defining actuation plans. A number of criteria for defining actuation priorities are proposed in this work. They are based on combinations of risk parameters resulting from the risk study (such as expected ground motion and damage and exposed population), as determined by risk assessment specialists. Although the values that these parameters take are a result of the risk study, their distribution in several classes depends on the intervals defined by decision takers or civil defense officials. These criteria provide a ranking of

  12. 'tomo_display' and 'vol_tools': IDL VM Packages for Tomography Data Reconstruction, Processing, and Visualization

    Science.gov (United States)

    Rivers, M. L.; Gualda, G. A.

    2009-05-01

    One of the challenges in tomography is the availability of suitable software for image processing and analysis in 3D. We present here 'tomo_display' and 'vol_tools', two packages created in IDL that enable reconstruction, processing, and visualization of tomographic data. They complement in many ways the capabilities offered by Blob3D (Ketcham 2005 - Geosphere, 1: 32-41, DOI: 10.1130/GES00001.1) and, in combination, allow users without programming knowledge to perform all steps necessary to obtain qualitative and quantitative information using tomographic data. The package 'tomo_display' was created and is maintained by Mark Rivers. It allows the user to: (1) preprocess and reconstruct parallel beam tomographic data, including removal of anomalous pixels, ring artifact reduction, and automated determination of the rotation center, (2) visualization of both raw and reconstructed data, either as individual frames, or as a series of sequential frames. The package 'vol_tools' consists of a series of small programs created and maintained by Guilherme Gualda to perform specific tasks not included in other packages. Existing modules include simple tools for cropping volumes, generating histograms of intensity, sample volume measurement (useful for porous samples like pumice), and computation of volume differences (for differential absorption tomography). The module 'vol_animate' can be used to generate 3D animations using rendered isosurfaces around objects. Both packages use the same NetCDF format '.volume' files created using code written by Mark Rivers. Currently, only 16-bit integer volumes are created and read by the packages, but floating point and 8-bit data can easily be stored in the NetCDF format as well. A simple GUI to convert sequences of tiffs into '.volume' files is available within 'vol_tools'. Both 'tomo_display' and 'vol_tools' include options to (1) generate onscreen output that allows for dynamic visualization in 3D, (2) save sequences of tiffs to disk

  13. Comparative Study of Load Testing Tools: Apache JMeter, HP LoadRunner, Microsoft Visual Studio (TFS, Siege

    Directory of Open Access Journals (Sweden)

    Rabiya Abbas

    2017-12-01

    Full Text Available Software testing is the process of verifying and validating the user’s requirements. Testing is ongoing process during whole software development. Software testing is characterized into three main types. That is, in Black box testing, user doesn’t know domestic knowledge, internal logics and design of system. In white box testing, Tester knows the domestic logic of code. In Grey box testing, Tester has little bit knowledge about the internal structure and working of the system. It is commonly used in case of Integration testing.Load testing helps us to analyze the performance of the system under heavy load or under Zero load. This is achieved with the help of a Load Testing Tool. The intention for writing this research is to carry out a comparison of four load testing tools i.e. Apache JMeter, LoadRunner, Microsoft Visual Studio (TFS, Siege based on certain criteria  i.e. test scripts generation , result reports, application support, plug-in supports, and cost . The main focus is to study these load testing tools and identify which tool is better and more efficient . We assume this comparison can help in selecting the most appropriate tool and motivates the use of open source load testing tools.

  14. SNPexp - A web tool for calculating and visualizing correlation between HapMap genotypes and gene expression levels

    Directory of Open Access Journals (Sweden)

    Franke Andre

    2010-12-01

    Full Text Available Abstract Background Expression levels for 47294 transcripts in lymphoblastoid cell lines from all 270 HapMap phase II individuals, and genotypes (both HapMap phase II and III of 3.96 million single nucleotide polymorphisms (SNPs in the same individuals are publicly available. We aimed to generate a user-friendly web based tool for visualization of the correlation between SNP genotypes within a specified genomic region and a gene of interest, which is also well-known as an expression quantitative trait locus (eQTL analysis. Results SNPexp is implemented as a server-side script, and publicly available on this website: http://tinyurl.com/snpexp. Correlation between genotype and transcript expression levels are calculated by performing linear regression and the Wald test as implemented in PLINK and visualized using the UCSC Genome Browser. Validation of SNPexp using previously published eQTLs yielded comparable results. Conclusions SNPexp provides a convenient and platform-independent way to calculate and visualize the correlation between HapMap genotypes within a specified genetic region anywhere in the genome and gene expression levels. This allows for investigation of both cis and trans effects. The web interface and utilization of publicly available and widely used software resources makes it an attractive supplement to more advanced bioinformatic tools. For the advanced user the program can be used on a local computer on custom datasets.

  15. Monitoring CMS tracker construction and data quality using a Grid/Web service based on a visualization tool

    CERN Document Server

    Zito, Giuseppe; Regano, A

    2004-01-01

    The complexity of the CMS tracker (more than 50 million channels to monitor) now in construction in ten laboratories worldwide with hundreds of interested people, will require new tools for monitoring both the hardware and the software. In our approach we use both visualization tools and Grid services to make this monitoring possible. The use of visualization enables us to represent in a single computer screen all those million channels at once. The Grid will make it possible to get enough data and computing power in order to check every channel and also to reach the experts everywhere in the world allowing the early discovery of problems. We report here on a first prototype developed using the Grid environment already available now in CMS i.e. LCG2. This prototype consists on a Java client which implements the GUI for tracker visualization and two data servers connected to the tracker construction database and to Grid catalogs of event datasets. All the communication between client and servers is done using ...

  16. Visualizing the Cardiac Cycle: A Useful Tool to Promote Student Understanding

    Directory of Open Access Journals (Sweden)

    Ivan Shun Ho

    2011-03-01

    Full Text Available The cardiac cycle is an important concept presented in human anatomy and physiology courses. At Kingsborough Community College, all Allied Health majors taking Anatomy & Physiology must understand the cardiac cycle to grasp more advanced concepts. Contemporary textbooks illustrate the cardiac cycle’s concurrent events via linear models with overlapping line segments as physiological readouts. This presentation is appropriate for reference but, in the interactive classroom the promotion of understanding through clear, concise visual cues is essential. Muzio and Pilchman created a diagram to summarize events of the cardiac cycle. After discussions with one of the authors, I modified the diagram to aid visualization of the cycle and emphasize it as a repetitive, continuous process. A flow diagram presenting the portions of the cycle individually and progressively was also constructed. Three labeled phases are made from the diagram, based on grouped events occurring at different points. The simple, compartmentalized, cyclical diagram presented here promotes understanding of the cardiac cycle visually.

  17. Visual operations management tools in oil pipelines and terminals standardization processes

    Energy Technology Data Exchange (ETDEWEB)

    De Ludovico Almeida, Maria Fatima [Pontifical Catholic University of Rio de Janeiro (Brazil); Santiago, Adilson; Senra Ribeiro, Kassandra; Mendonca Arruda, Daniela [Petrobras Transporte (Brazil)

    2010-07-01

    Visual operations management (VOM) takes advantage of visual cues to communicate information, simplify processes and improve the quality and safety of operations. Because of heightened competition, the importance of standardization and quality management processes has become more evident for pipeline companies. Petrobras Transporte's marine terminal units has been working over the last years to be recognized as a reference in the activities it pursues. This is based on the Petrobras Transporte's strategic plan 2020, which foresees amongst others, the specialization of technical workforce, operational safety excellence, capital discipline, customer satisfaction, the search for new technologies and markets and the rendering of new services. To achieve these goals, the Marine Terminals standardization program must be adhered to. Focusing on communication and adoption of standards and procedures, this paper describes how visual guides were conceived and implemented within Petrobras Transporte to enable operators and technicians to meet operational, environmental and occupational health and safety requirements.

  18. Visual Indicators on Vaccine Boxes as Early Warning Tools to Identify Potential Freeze Damage.

    Science.gov (United States)

    Angoff, Ronald; Wood, Jillian; Chernock, Maria C; Tipping, Diane

    2015-07-01

    The aim of this study was to determine whether the use of visual freeze indicators on vaccines would assist health care providers in identifying vaccines that may have been exposed to potentially damaging temperatures. Twenty-seven sites in Connecticut involved in the Vaccine for Children Program participated. In addition to standard procedures, visual freeze indicators (FREEZEmarker ® L; Temptime Corporation, Morris Plains, NJ) were affixed to each box of vaccine that required refrigeration but must not be frozen. Temperatures were monitored twice daily. During the 24 weeks, all 27 sites experienced triggered visual freeze indicator events in 40 of the 45 refrigerators. A total of 66 triggered freeze indicator events occurred in all 4 types of refrigerators used. Only 1 of the freeze events was identified by a temperature-monitoring device. Temperatures recorded on vaccine data logs before freeze indicator events were within the 35°F to 46°F (2°C to 8°C) range in all but 1 instance. A total of 46,954 doses of freeze-sensitive vaccine were stored at the time of a visual freeze indicator event. Triggered visual freeze indicators were found on boxes containing 6566 doses (14.0% of total doses). Of all doses stored, 14,323 doses (30.5%) were of highly freeze-sensitive vaccine; 1789 of these doses (12.5%) had triggered indicators on the boxes. Visual freeze indicators are useful in the early identification of freeze events involving vaccines. Consideration should be given to including these devices as a component of the temperature-monitoring system for vaccines.

  19. Effects of Various Sketching Tools on Visual Thinking in Idea Development

    Science.gov (United States)

    Chu, Po Ying; Hung, Hsiu Yen; Wu, Chih Fu; Liu, Yen Te

    2017-01-01

    Due to the wide application of digital tools and the improvement in interactive technologies, design thinking might change in digital world comparing to that in traditional design process. This study aims to explore the difference of design thinking between three kinds of sketching tools, i.e. hand-sketch, tablet, and pen-input display, by means…

  20. EPIPOI: A user-friendly analytical tool for the extraction and visualization of temporal parameters from epidemiological time series

    Directory of Open Access Journals (Sweden)

    Alonso Wladimir J

    2012-11-01

    Full Text Available Abstract Background There is an increasing need for processing and understanding relevant information generated by the systematic collection of public health data over time. However, the analysis of those time series usually requires advanced modeling techniques, which are not necessarily mastered by staff, technicians and researchers working on public health and epidemiology. Here a user-friendly tool, EPIPOI, is presented that facilitates the exploration and extraction of parameters describing trends, seasonality and anomalies that characterize epidemiological processes. It also enables the inspection of those parameters across geographic regions. Although the visual exploration and extraction of relevant parameters from time series data is crucial in epidemiological research, until now it had been largely restricted to specialists. Methods EPIPOI is freely available software developed in Matlab (The Mathworks Inc that runs both on PC and Mac computers. Its friendly interface guides users intuitively through useful comparative analyses including the comparison of spatial patterns in temporal parameters. Results EPIPOI is able to handle complex analyses in an accessible way. A prototype has already been used to assist researchers in a variety of contexts from didactic use in public health workshops to the main analytical tool in published research. Conclusions EPIPOI can assist public health officials and students to explore time series data using a broad range of sophisticated analytical and visualization tools. It also provides an analytical environment where even advanced users can benefit by enabling a higher degree of control over model assumptions, such as those associated with detecting disease outbreaks and pandemics.

  1. SimilarityExplorer: A visual inter-comparison tool for multifaceted climate data

    Science.gov (United States)

    J. Poco; A. Dasgupta; Y. Wei; W. Hargrove; C. Schwalm; R. Cook; E. Bertini; C. Silva

    2014-01-01

    Inter-comparison and similarity analysis to gauge consensus among multiple simulation models is a critical visualization problem for understanding climate change patterns. Climate models, specifically, Terrestrial Biosphere Models (TBM) represent time and space variable ecosystem processes, for example, simulations of photosynthesis and respiration, using algorithms...

  2. Student profiling on university co-curriculum activities using data visualization tools

    Science.gov (United States)

    Jamil, Jastini Mohd.; Shaharanee, Izwan Nizal Mohd

    2017-11-01

    Co-curricular activities are playing a vital role in the development of a holistic student. Co-curriculum can be described as an extension of the formal learning experiences in a course or academic program. There are many co-curriculum activities such as students' participation in sports, volunteerism, leadership, entrepreneurship, uniform body, student council, and other social events. The number of student involves in co-curriculum activities are large, thus creating an enormous volume of data including their demographic facts, academic performance and co-curriculum types. The task for discovering and analyzing these information becomes increasingly difficult and hard to comprehend. Data visualization offer a better ways in handling with large volume of information. The need for an understanding of these various co-curriculum activities and their effect towards student performance are essential. Visualizing these information can help related stakeholders to become aware of hidden and interesting information from large amount of data drowning in their student data. The main objective of this study is to provide a clearer understanding of the different trends hidden in the student co-curriculum activities data with related to their activities and academic performances. The data visualization software was used to help visualize the data extracted from the database.

  3. Efficient analysis using custom interactive visualization tools at a Superfund site

    International Nuclear Information System (INIS)

    Williams, G.; Durham, L.

    1992-01-01

    Custom visualization analysis programs were developed and used to analyze contaminant transport calculations from a three-dimensional numerical groundwater flow model developed for a Department of Energy Superfund site. The site hydrogeology, which is highly heterogenous, includes both fractured limestone and dolomite and alluvium deposits. Three-dimensional interactive visualization techniques were used to understand and analyze the three-dimensional, double-porosity modeling results. A graphical object oriented programming environment was applied to efficiently develop custom visualization programs in a coarse-grained data structure language. Comparisons were made, using the results from the three-dimensional, finite-difference model, between traditional two-dimensional analyses (contour and vector plots) and interactive three-dimensional techniques. Subjective comparison areas include the accuracy of analysis, the ability to understand the results of three-dimensional contaminant transport simulation, and the capability to transmit the results of the analysis to the project management. In addition, a quantitative comparison was made on the time required to develop a thorough analysis of the modeling results. The conclusions from the comparative study showed that the visualization analysis provided an increased awareness of the contaminant transport mechanisms, provided new insights into contaminant migration, and resulted in a significant time savings

  4. A Visual Encapsulation of Adlerian Theory: A Tool for Teaching and Learning.

    Science.gov (United States)

    Osborn, Cynthia J.

    2001-01-01

    A visual diagram is presented in this article to illustrate 6 key concepts of Adlerian theory discussed in corresponding narrative format. It is proposed that in an age of multimedia learning, a pictorial reference can enhance the teaching and learning of Adlerian theory, representing a commitment to humanistic education. (Contains 18 references.)…

  5. Efficient analysis using custom interactive visualization tools at a Superfund site

    Energy Technology Data Exchange (ETDEWEB)

    Williams, G. [Northwestern Univ., Evanston, IL (United States); Durham, L. [Argonne National Lab., IL (United States)

    1992-12-01

    Custom visualization analysis programs were developed and used to analyze contaminant transport calculations from a three-dimensional numerical groundwater flow model developed for a Department of Energy Superfund site. The site hydrogeology, which is highly heterogenous, includes both fractured limestone and dolomite and alluvium deposits. Three-dimensional interactive visualization techniques were used to understand and analyze the three-dimensional, double-porosity modeling results. A graphical object oriented programming environment was applied to efficiently develop custom visualization programs in a coarse-grained data structure language. Comparisons were made, using the results from the three-dimensional, finite-difference model, between traditional two-dimensional analyses (contour and vector plots) and interactive three-dimensional techniques. Subjective comparison areas include the accuracy of analysis, the ability to understand the results of three-dimensional contaminant transport simulation, and the capability to transmit the results of the analysis to the project management. In addition, a quantitative comparison was made on the time required to develop a thorough analysis of the modeling results. The conclusions from the comparative study showed that the visualization analysis provided an increased awareness of the contaminant transport mechanisms, provided new insights into contaminant migration, and resulted in a significant time savings.

  6. Using a free software tool for the visualization of complicated electromagnetic fields

    International Nuclear Information System (INIS)

    Murello, A; Milotti, E

    2014-01-01

    Here, we show how a readily available and free scientific visualization program—ParaView—can be used to display electric fields in interesting situations. We give a few examples and specify the individual steps that lead to highly educational representations of the fields. (paper)

  7. SlicerAstro : A 3-D interactive visual analytics tool for HI data

    NARCIS (Netherlands)

    Punzo, D.; van der Hulst, J. M.; Roerdink, J. B. T. M.; Fillion-Robin, J. C.; Yu, L.

    SKA precursors are capable of detecting hundreds of galaxies in HI in a single 12 h pointing. In deeper surveys one will probe more easily faint HI structures, typically located in the vicinity of galaxies, such as tails, filaments, and extraplanar gas. The importance of interactive visualization in

  8. Knowledge Visualizations: A Tool to Achieve Optimized Operational Decision Making and Data Integration

    Science.gov (United States)

    2015-06-01

    based upon a pyramid of feedback loops, FFIRs, or PIRs. Reports, in response to FFIRs and PIRs, forward information up the chain of command as a...Communication, The American University, Cairo, Egypt . Keim, D. A., Mansmann, F., Schneidewind, J., & Ziegler, H. (2006). Challenges in visual data

  9. GenomeCAT: a versatile tool for the analysis and integrative visualization of DNA copy number variants.

    Science.gov (United States)

    Tebel, Katrin; Boldt, Vivien; Steininger, Anne; Port, Matthias; Ebert, Grit; Ullmann, Reinhard

    2017-01-06

    The analysis of DNA copy number variants (CNV) has increasing impact in the field of genetic diagnostics and research. However, the interpretation of CNV data derived from high resolution array CGH or NGS platforms is complicated by the considerable variability of the human genome. Therefore, tools for multidimensional data analysis and comparison of patient cohorts are needed to assist in the discrimination of clinically relevant CNVs from others. We developed GenomeCAT, a standalone Java application for the analysis and integrative visualization of CNVs. GenomeCAT is composed of three modules dedicated to the inspection of single cases, comparative analysis of multidimensional data and group comparisons aiming at the identification of recurrent aberrations in patients sharing the same phenotype, respectively. Its flexible import options ease the comparative analysis of own results derived from microarray or NGS platforms with data from literature or public depositories. Multidimensional data obtained from different experiment types can be merged into a common data matrix to enable common visualization and analysis. All results are stored in the integrated MySQL database, but can also be exported as tab delimited files for further statistical calculations in external programs. GenomeCAT offers a broad spectrum of visualization and analysis tools that assist in the evaluation of CNVs in the context of other experiment data and annotations. The use of GenomeCAT does not require any specialized computer skills. The various R packages implemented for data analysis are fully integrated into GenomeCATs graphical user interface and the installation process is supported by a wizard. The flexibility in terms of data import and export in combination with the ability to create a common data matrix makes the program also well suited as an interface between genomic data from heterogeneous sources and external software tools. Due to the modular architecture the functionality of

  10. The design of a visual history tool to help users refind information within a website

    OpenAIRE

    Do, TV; Ruddle, RA

    2012-01-01

    On the WWW users frequently revisit information they have previously seen, but "keeping found things found" is difficult when the information has not been visited frequently or recently, even if a user knows which website contained the information. This paper describes the design of a tool to help users refind information within a given website. The tool encodes data about a user's interest in webpages (measured by dwell time), the frequency and recency of visits, and navigational association...

  11. Visual-Haptic Integration: Cue Weights are Varied Appropriately, to Account for Changes in Haptic Reliability Introduced by Using a Tool

    OpenAIRE

    Chie Takahashi; Simon J Watt

    2011-01-01

    Tools such as pliers systematically change the relationship between an object's size and the hand opening required to grasp it. Previous work suggests the brain takes this into account, integrating visual and haptic size information that refers to the same object, independent of the similarity of the ‘raw’ visual and haptic signals (Takahashi et al., VSS 2009). Variations in tool geometry also affect the reliability (precision) of haptic size estimates, however, because they alter the change ...

  12. VISUALIZATION IN THE PACKAGE AUTODESK INVENTOR SKETCH GEOMETRY WHEN USING TOOLS IN THE THEORY OF R-FUNCTIONS

    Directory of Open Access Journals (Sweden)

    E. Іvanov

    2015-12-01

    Full Text Available The paper deals with possibility of automation and control of the computational process when using the tools in the theory of R-functions possessing the properties of logic algebra, while not going beyond the elementary functions, make it possible to build the equations of geometric objects with an almost arbitrary shape. And the use of computer graphics makes it posible to represent the equation of the boundar surface and the conical region of the curved tooth coupling and the whole disk in on analytical form with possible visualization in the Autodesk Inventor package.

  13. Web based tools for visualizing imaging data and development of XNATView, a zero footprint image viewer.

    Science.gov (United States)

    Gutman, David A; Dunn, William D; Cobb, Jake; Stoner, Richard M; Kalpathy-Cramer, Jayashree; Erickson, Bradley

    2014-01-01

    Advances in web technologies now allow direct visualization of imaging data sets without necessitating the download of large file sets or the installation of software. This allows centralization of file storage and facilitates image review and analysis. XNATView is a light framework recently developed in our lab to visualize DICOM images stored in The Extensible Neuroimaging Archive Toolkit (XNAT). It consists of a PyXNAT-based framework to wrap around the REST application programming interface (API) and query the data in XNAT. XNATView was developed to simplify quality assurance, help organize imaging data, and facilitate data sharing for intra- and inter-laboratory collaborations. Its zero-footprint design allows the user to connect to XNAT from a web browser, navigate through projects, experiments, and subjects, and view DICOM images with accompanying metadata all within a single viewing instance.

  14. Visual development as a tool for storytelling in animated feature films

    OpenAIRE

    Moura, João Garcia de Lima de

    2014-01-01

    This dissertation aims to study and deepen the understanding of Visual Development and the way it is used towards storytelling. In animated feature and short films every element is studied and created in order to help the viewer understand the story. We will study concepts like color and light to understand how they are used in order to create an emotional connection between the animation and the viewer. The animated film ‘Beauty and the Beast’ (1991) from Walt Disney studio...

  15. Ubiquitous Computing: Using everyday object as ambient visualization tools for persuasive design

    OpenAIRE

    Cahier, Jenny; Gullberg, Eric

    2008-01-01

    In order for companies to survive and advance in today’s competitive society, a massive amount of personal information from citizens is gathered. This thesis investigates how these digital footprints can be obtained and visualized to create awareness about personal actions and encourage change in behavior . In order to decide which data would be interesting and accessible, a map of possible application fields was generated and one single field was chosen for further study. The result is a bus...

  16. Visualization of E-commerce Transaction Data : USING BUSINESS INTELLIGENCE TOOLS

    OpenAIRE

    Safari, Arash

    2015-01-01

    Customer Value(CV) is a data analytics company experiencing problems presenting the result of their analytics in a satisfiable manner. As a result, they considered the use of a data visualization and business intelligence softwares. The purpose of such softwares are to, amongst other things, virtually represent data in an interactive and perceptible manner to the viewer. There are however a large number of these types of applications on the market, making it hard for companies to find the one...

  17. AppEEARS: A Simple Tool that Eases Complex Data Integration and Visualization Challenges for Users

    Science.gov (United States)

    Maiersperger, T.

    2017-12-01

    The Application for Extracting and Exploring Analysis-Ready Samples (AppEEARS) offers a simple and efficient way to perform discovery, processing, visualization, and acquisition across large quantities and varieties of Earth science data. AppEEARS brings significant value to a very broad array of user communities by 1) significantly reducing data volumes, at-archive, based on user-defined space-time-variable subsets, 2) promoting interoperability across a wide variety of datasets via format and coordinate reference system harmonization, 3) increasing the velocity of both data analysis and insight by providing analysis-ready data packages and by allowing interactive visual exploration of those packages, and 4) ensuring veracity by making data quality measures more apparent and usable and by providing standards-based metadata and processing provenance. Development and operation of AppEEARS is led by the National Aeronautics and Space Administration (NASA) Land Processes Distributed Active Archive Center (LP DAAC). The LP DAAC also partners with several other archives to extend the capability across a larger federation of geospatial data providers. Over one hundred datasets are currently available, covering a diversity of variables including land cover, population, elevation, vegetation indices, and land surface temperature. Many hundreds of users have already used this new web-based capability to make the complex tasks of data integration and visualization much simpler and more efficient.

  18. Reverse alignment "mirror image" visualization as a laparoscopic training tool improves task performance.

    Science.gov (United States)

    Dunnican, Ward J; Singh, T Paul; Ata, Ashar; Bendana, Emma E; Conlee, Thomas D; Dolce, Charles J; Ramakrishnan, Rakesh

    2010-06-01

    Reverse alignment (mirror image) visualization is a disconcerting situation occasionally faced during laparoscopic operations. This occurs when the camera faces back at the surgeon in the opposite direction from which the surgeon's body and instruments are facing. Most surgeons will attempt to optimize trocar and camera placement to avoid this situation. The authors' objective was to determine whether the intentional use of reverse alignment visualization during laparoscopic training would improve performance. A standard box trainer was configured for reverse alignment, and 34 medical students and junior surgical residents were randomized to train with either forward alignment (DIRECT) or reverse alignment (MIRROR) visualization. Enrollees were tested on both modalities before and after a 4-week structured training program specific to their modality. Student's t test was used to determine differences in task performance between the 2 groups. Twenty-one participants completed the study (10 DIRECT, 11 MIRROR). There were no significant differences in performance time between DIRECT or MIRROR participants during forward or reverse alignment initial testing. At final testing, DIRECT participants had improved times only in forward alignment performance; they demonstrated no significant improvement in reverse alignment performance. MIRROR participants had significant time improvement in both forward and reverse alignment performance at final testing. Reverse alignment imaging for laparoscopic training improves task performance for both reverse alignment and forward alignment tasks. This may be translated into improved performance in the operating room when faced with reverse alignment situations. Minimal lab training can account for drastic adaptation to this environment.

  19. Creating User-Friendly Tools for Data Analysis and Visualization in K-12 Classrooms: A Fortran Dinosaur Meets Generation Y

    Science.gov (United States)

    Chambers, L. H.; Chaudhury, S.; Page, M. T.; Lankey, A. J.; Doughty, J.; Kern, Steven; Rogerson, Tina M.

    2008-01-01

    During the summer of 2007, as part of the second year of a NASA-funded project in partnership with Christopher Newport University called SPHERE (Students as Professionals Helping Educators Research the Earth), a group of undergraduate students spent 8 weeks in a research internship at or near NASA Langley Research Center. Three students from this group formed the Clouds group along with a NASA mentor (Chambers), and the brief addition of a local high school student fulfilling a mentorship requirement. The Clouds group was given the task of exploring and analyzing ground-based cloud observations obtained by K-12 students as part of the Students' Cloud Observations On-Line (S'COOL) Project, and the corresponding satellite data. This project began in 1997. The primary analysis tools developed for it were in FORTRAN, a computer language none of the students were familiar with. While they persevered through computer challenges and picky syntax, it eventually became obvious that this was not the most fruitful approach for a project aimed at motivating K-12 students to do their own data analysis. Thus, about halfway through the summer the group shifted its focus to more modern data analysis and visualization tools, namely spreadsheets and Google(tm) Earth. The result of their efforts, so far, is two different Excel spreadsheets and a Google(tm) Earth file. The spreadsheets are set up to allow participating classrooms to paste in a particular dataset of interest, using the standard S'COOL format, and easily perform a variety of analyses and comparisons of the ground cloud observation reports and their correspondence with the satellite data. This includes summarizing cloud occurrence and cloud cover statistics, and comparing cloud cover measurements from the two points of view. A visual classification tool is also provided to compare the cloud levels reported from the two viewpoints. This provides a statistical counterpart to the existing S'COOL data visualization tool

  20. Using McIDAS-V data analysis and visualization software as an educational tool for understanding the atmosphere

    Science.gov (United States)

    Achtor, T. H.; Rink, T.

    2010-12-01

    The University of Wisconsin’s Space Science and Engineering Center (SSEC) has been at the forefront in developing data analysis and visualization tools for environmental satellites and other geophysical data. The fifth generation of the Man-computer Interactive Data Access System (McIDAS-V) is Java-based, open-source, freely available software that operates on Linux, Macintosh and Windows systems. The software tools provide powerful new data manipulation and visualization capabilities that work with geophysical data in research, operational and educational environments. McIDAS-V provides unique capabilities to support innovative techniques for evaluating research results, teaching and training. McIDAS-V is based on three powerful software elements. VisAD is a Java library for building interactive, collaborative, 4 dimensional visualization and analysis tools. The Integrated Data Viewer (IDV) is a reference application based on the VisAD system and developed by the Unidata program that demonstrates the flexibility that is needed in this evolving environment, using a modern, object-oriented software design approach. The third tool, HYDRA, allows users to build, display and interrogate multi and hyperspectral environmental satellite data in powerful ways. The McIDAS-V software is being used for training and education in several settings. The McIDAS User Group provides training workshops at its annual meeting. Numerous online tutorials with training data sets have been developed to aid users in learning simple and more complex operations in McIDAS-V, all are available online. In a University of Wisconsin-Madison undergraduate course in Radar and Satellite Meteorology, McIDAS-V is used to create and deliver laboratory exercises using case study and real time data. At the high school level, McIDAS-V is used in several exercises in our annual Summer Workshop in Earth and Atmospheric Sciences to provide young scientists the opportunity to examine data with friendly and

  1. Development and formative evaluation of a visual e-tool to help decision makers navigate the evidence around health financing.

    Science.gov (United States)

    Skordis-Worrall, Jolene; Pulkki-Brännström, Anni-Maria; Utley, Martin; Kembhavi, Gayatri; Bricki, Nouria; Dutoit, Xavier; Rosato, Mikey; Pagel, Christina

    2012-12-21

    There are calls for low and middle income countries to develop robust health financing policies to increase service coverage. However, existing evidence around financing options is complex and often difficult for policy makers to access. To summarize the evidence on the impact of financing health systems and develop an e-tool to help decision makers navigate the findings. After reviewing the literature, we used thematic analysis to summarize the impact of 7 common health financing mechanisms on 5 common health system goals. Information on the relevance of each study to a user's context was provided by 11 country indicators. A Web-based e-tool was then developed to assist users in navigating the literature review. This tool was evaluated using feedback from early users, collected using an online survey and in-depth interviews with key informants. The e-tool provides graphical summaries that allow a user to assess the following parameters with a single snapshot: the number of relevant studies available in the literature, the heterogeneity of evidence, where key evidence is lacking, and how closely the evidence matches their own context. Users particularly liked the visual display and found navigating the tool intuitive. However there was concern that a lack of evidence on positive impact might be construed as evidence against a financing option and that the tool might over-simplify the available financing options. Complex evidence can be made more easily accessible and potentially more understandable using basic Web-based technology and innovative graphical representations that match findings to the users' goals and context.

  2. A medical application integrating remote 3D visualization tools to access picture archiving and communication system on mobile devices.

    Science.gov (United States)

    He, Longjun; Ming, Xing; Liu, Qian

    2014-04-01

    With computing capability and display size growing, the mobile device has been used as a tool to help clinicians view patient information and medical images anywhere and anytime. However, for direct interactive 3D visualization, which plays an important role in radiological diagnosis, the mobile device cannot provide a satisfactory quality of experience for radiologists. This paper developed a medical system that can get medical images from the picture archiving and communication system on the mobile device over the wireless network. In the proposed application, the mobile device got patient information and medical images through a proxy server connecting to the PACS server. Meanwhile, the proxy server integrated a range of 3D visualization techniques, including maximum intensity projection, multi-planar reconstruction and direct volume rendering, to providing shape, brightness, depth and location information generated from the original sectional images for radiologists. Furthermore, an algorithm that changes remote render parameters automatically to adapt to the network status was employed to improve the quality of experience. Finally, performance issues regarding the remote 3D visualization of the medical images over the wireless network of the proposed application were also discussed. The results demonstrated that this proposed medical application could provide a smooth interactive experience in the WLAN and 3G networks.

  3. Performance analysis and optimization of an advanced pharmaceutical wastewater treatment plant through a visual basic software tool (PWWT.VB).

    Science.gov (United States)

    Pal, Parimal; Thakura, Ritwik; Chakrabortty, Sankha

    2016-05-01

    A user-friendly, menu-driven simulation software tool has been developed for the first time to optimize and analyze the system performance of an advanced continuous membrane-integrated pharmaceutical wastewater treatment plant. The software allows pre-analysis and manipulation of input data which helps in optimization and shows the software performance visually on a graphical platform. Moreover, the software helps the user to "visualize" the effects of the operating parameters through its model-predicted output profiles. The software is based on a dynamic mathematical model, developed for a systematically integrated forward osmosis-nanofiltration process for removal of toxic organic compounds from pharmaceutical wastewater. The model-predicted values have been observed to corroborate well with the extensive experimental investigations which were found to be consistent under varying operating conditions like operating pressure, operating flow rate, and draw solute concentration. Low values of the relative error (RE = 0.09) and high values of Willmott-d-index (d will = 0.981) reflected a high degree of accuracy and reliability of the software. This software is likely to be a very efficient tool for system design or simulation of an advanced membrane-integrated treatment plant for hazardous wastewater.

  4. The Computerized Perceptual Motor Skills Assessment: A new visual perceptual motor skills evaluation tool for children in early elementary grades.

    Science.gov (United States)

    Howe, Tsu-Hsin; Chen, Hao-Ling; Lee, Candy Chieh; Chen, Ying-Dar; Wang, Tien-Ni

    2017-10-01

    Visual perceptual motor skills have been proposed as underlying courses of handwriting difficulties. However, there is no evaluation tool currently available to assess these skills comprehensively and to serve as a sensitive measure. The purpose of this study was to validate the Computerized Perceptual Motor Skills Assessment (CPMSA), a newly developed evaluation tool for children in early elementary grades. Its test-retest reliability, concurrent validity, discriminant validity, and responsiveness were examined in 43 typically developing children and 26 children with handwriting difficulty. The CPMSA demonstrated excellent reliability across all subtests with intra-class correlation coefficients (ICCs)≥0.80. Significant moderate correlations between the domains of the CPMSA and corresponding gold standards including Beery VMI, the TVPS-3, and the eye-hand coordination subtest of the DTVP-2 demonstrated good concurrent validity. In addition, the CPMSA showed evidence of discriminant validity in samples of children with and without handwriting difficulty. This article provides evidence in support of the CPMSA. The CPMSA is a reliable, valid, and promising measure of visual perceptual motor skills for children in early elementary grades. Directions for future study and improvements to the assessment are discussed. Copyright © 2017. Published by Elsevier Ltd.

  5. SieveSifter: a web-based tool for visualizing the sieve analyses of HIV-1 vaccine efficacy trials.

    Science.gov (United States)

    Fiore-Gartland, Andrew; Kullman, Nicholas; deCamp, Allan C; Clenaghan, Graham; Yang, Wayne; Magaret, Craig A; Edlefsen, Paul T; Gilbert, Peter B

    2017-08-01

    Analysis of HIV-1 virions from participants infected in a randomized controlled preventive HIV-1 vaccine efficacy trial can help elucidate mechanisms of partial protection. By comparing the genetic sequence of viruses from vaccine and placebo recipients to the sequence of the vaccine itself, a technique called 'sieve analysis', one can identify functional specificities of vaccine-induced immune responses. We have created an interactive web-based visualization and data access tool for exploring the results of sieve analyses performed on four major preventive HIV-1 vaccine efficacy trials: (i) the HIV Vaccine Trial Network (HVTN) 502/Step trial, (ii) the RV144/Thai trial, (iii) the HVTN 503/Phambili trial and (iv) the HVTN 505 trial. The tool acts simultaneously as a platform for rapid reinterpretation of sieve effects and as a portal for organizing and sharing the viral sequence data. Access to these valuable datasets also enables the development of novel methodology for future sieve analyses. Visualization: http://sieve.fredhutch.org/viz . Source code: https://github.com/nkullman/SIEVE . Data API: http://sieve.fredhutch.org/data . agartlan@fredhutch.org. © The Author(s) 2017. Published by Oxford University Press.

  6. BrainNet Viewer: a network visualization tool for human brain connectomics.

    Science.gov (United States)

    Xia, Mingrui; Wang, Jinhui; He, Yong

    2013-01-01

    The human brain is a complex system whose topological organization can be represented using connectomics. Recent studies have shown that human connectomes can be constructed using various neuroimaging technologies and further characterized using sophisticated analytic strategies, such as graph theory. These methods reveal the intriguing topological architectures of human brain networks in healthy populations and explore the changes throughout normal development and aging and under various pathological conditions. However, given the huge complexity of this methodology, toolboxes for graph-based network visualization are still lacking. Here, using MATLAB with a graphical user interface (GUI), we developed a graph-theoretical network visualization toolbox, called BrainNet Viewer, to illustrate human connectomes as ball-and-stick models. Within this toolbox, several combinations of defined files with connectome information can be loaded to display different combinations of brain surface, nodes and edges. In addition, display properties, such as the color and size of network elements or the layout of the figure, can be adjusted within a comprehensive but easy-to-use settings panel. Moreover, BrainNet Viewer draws the brain surface, nodes and edges in sequence and displays brain networks in multiple views, as required by the user. The figure can be manipulated with certain interaction functions to display more detailed information. Furthermore, the figures can be exported as commonly used image file formats or demonstration video for further use. BrainNet Viewer helps researchers to visualize brain networks in an easy, flexible and quick manner, and this software is freely available on the NITRC website (www.nitrc.org/projects/bnv/).

  7. BrainNet Viewer: a network visualization tool for human brain connectomics.

    Directory of Open Access Journals (Sweden)

    Mingrui Xia

    Full Text Available The human brain is a complex system whose topological organization can be represented using connectomics. Recent studies have shown that human connectomes can be constructed using various neuroimaging technologies and further characterized using sophisticated analytic strategies, such as graph theory. These methods reveal the intriguing topological architectures of human brain networks in healthy populations and explore the changes throughout normal development and aging and under various pathological conditions. However, given the huge complexity of this methodology, toolboxes for graph-based network visualization are still lacking. Here, using MATLAB with a graphical user interface (GUI, we developed a graph-theoretical network visualization toolbox, called BrainNet Viewer, to illustrate human connectomes as ball-and-stick models. Within this toolbox, several combinations of defined files with connectome information can be loaded to display different combinations of brain surface, nodes and edges. In addition, display properties, such as the color and size of network elements or the layout of the figure, can be adjusted within a comprehensive but easy-to-use settings panel. Moreover, BrainNet Viewer draws the brain surface, nodes and edges in sequence and displays brain networks in multiple views, as required by the user. The figure can be manipulated with certain interaction functions to display more detailed information. Furthermore, the figures can be exported as commonly used image file formats or demonstration video for further use. BrainNet Viewer helps researchers to visualize brain networks in an easy, flexible and quick manner, and this software is freely available on the NITRC website (www.nitrc.org/projects/bnv/.

  8. SBGNViz: A Tool for Visualization and Complexity Management of SBGN Process Description Maps.

    Directory of Open Access Journals (Sweden)

    Mecit Sari

    Full Text Available Information about cellular processes and pathways is becoming increasingly available in detailed, computable standard formats such as BioPAX and SBGN. Effective visualization of this information is a key recurring requirement for biological data analysis, especially for -omic data. Biological data analysis is rapidly migrating to web based platforms; thus there is a substantial need for sophisticated web based pathway viewers that support these platforms and other use cases.Towards this goal, we developed a web based viewer named SBGNViz for process description maps in SBGN (SBGN-PD. SBGNViz can visualize both BioPAX and SBGN formats. Unique features of SBGNViz include the ability to nest nodes to arbitrary depths to represent molecular complexes and cellular locations, automatic pathway layout, editing and highlighting facilities to enable focus on sub-maps, and the ability to inspect pathway members for detailed information from EntrezGene. SBGNViz can be used within a web browser without any installation and can be readily embedded into web pages. SBGNViz has two editions built with ActionScript and JavaScript. The JavaScript edition, which also works on touch enabled devices, introduces novel methods for managing and reducing complexity of large SBGN-PD maps for more effective analysis.SBGNViz fills an important gap by making the large and fast-growing corpus of rich pathway information accessible to web based platforms. SBGNViz can be used in a variety of contexts and in multiple scenarios ranging from visualization of the results of a single study in a web page to building data analysis platforms.

  9. What Does the Future Hold for Scientific Journals? Visual Abstracts and Other Tools for Communicating Research.

    Science.gov (United States)

    Nikolian, Vahagn C; Ibrahim, Andrew M

    2017-09-01

    Journals fill several important roles within academic medicine, including building knowledge, validating quality of methods, and communicating research. This section provides an overview of these roles and highlights innovative approaches journals have taken to enhance dissemination of research. As journals move away from print formats and embrace web-based content, design-centered thinking will allow for engagement of a larger audience. Examples of recent efforts in this realm are provided, as well as simplified strategies for developing visual abstracts to improve dissemination via social media. Finally, we hone in on principles of learning and education which have driven these advances in multimedia-based communication in scientific research.

  10. The Methods of Cognitive Visualization for the Astronomical Databases Analyzing Tools Development

    Science.gov (United States)

    Vitkovskiy, V.; Gorohov, V.

    2008-08-01

    There are two kinds of computer graphics: the illustrative one and the cognitive one. Appropriate the cognitive pictures not only make evident and clear the sense of complex and difficult scientific concepts, but promote, --- and not so very rarely, --- a birth of a new knowledge. On the basis of the cognitive graphics concept, we worked out the SW-system for visualization and analysis. It allows to train and to aggravate intuition of researcher, to raise his interest and motivation to the creative, scientific cognition, to realize process of dialogue with the very problems simultaneously.

  11. The MHC motif viewer: a visualization tool for MHC binding motifs

    DEFF Research Database (Denmark)

    Rapin, Nicolas; Hoof, Ilka; Lund, Ole

    2010-01-01

    is hampered by the lack of tools for browsing and comparing specificity of these molecules. We have developed a Web server, MHC Motif Viewer, which allows the display of the binding motif for MHC class I proteins for human, chimpanzee, rhesus monkey, mouse, and swine, as well as HLA-DR protein sequences...

  12. An Integrated Approach to the Use of Complementary Visual Learning Tools in an Undergraduate Microbiology Class

    Science.gov (United States)

    McCabe, Bernadette

    2011-01-01

    The ability to appreciate the inter-connectedness of complex biological relationships can be difficult for many students. Graphical knowledge in the form of concept maps and flow charts are learning tools which can assist students to recognise the inter-connectivity. This report focuses on a trial which incorporates these two related visual…

  13. Spatial Visualization Learning in Engineering: Traditional Methods vs. a Web-Based Tool

    Science.gov (United States)

    Pedrosa, Carlos Melgosa; Barbero, Basilio Ramos; Miguel, Arturo Román

    2014-01-01

    This study compares an interactive learning manager for graphic engineering to develop spatial vision (ILMAGE_SV) to traditional methods. ILMAGE_SV is an asynchronous web-based learning tool that allows the manipulation of objects with a 3D viewer, self-evaluation, and continuous assessment. In addition, student learning may be monitored, which…

  14. A methodology for online visualization of the energy flow in a machine tool

    DEFF Research Database (Denmark)

    Mohammadi, Ali; Züst, Simon; Mayr, Josef

    2017-01-01

    the machining process and by this increasing its energy efficiency. This study intents to propose a method which has the capability of real-time monitoring of the entire energetic flows in a CNC machine tool including motors, pumps and cooling fluid. The structure of this approach is based on categorizing...

  15. MO-E-18C-04: Advanced Computer Simulation and Visualization Tools for Enhanced Understanding of Core Medical Physics Concepts

    International Nuclear Information System (INIS)

    Naqvi, S

    2014-01-01

    Purpose: Most medical physics programs emphasize proficiency in routine clinical calculations and QA. The formulaic aspect of these calculations and prescriptive nature of measurement protocols obviate the need to frequently apply basic physical principles, which, therefore, gradually decay away from memory. E.g. few students appreciate the role of electron transport in photon dose, making it difficult to understand key concepts such as dose buildup, electronic disequilibrium effects and Bragg-Gray theory. These conceptual deficiencies manifest when the physicist encounters a new system, requiring knowledge beyond routine activities. Methods: Two interactive computer simulation tools are developed to facilitate deeper learning of physical principles. One is a Monte Carlo code written with a strong educational aspect. The code can “label” regions and interactions to highlight specific aspects of the physics, e.g., certain regions can be designated as “starters” or “crossers,” and any interaction type can be turned on and off. Full 3D tracks with specific portions highlighted further enhance the visualization of radiation transport problems. The second code calculates and displays trajectories of a collection electrons under arbitrary space/time dependent Lorentz force using relativistic kinematics. Results: Using the Monte Carlo code, the student can interactively study photon and electron transport through visualization of dose components, particle tracks, and interaction types. The code can, for instance, be used to study kerma-dose relationship, explore electronic disequilibrium near interfaces, or visualize kernels by using interaction forcing. The electromagnetic simulator enables the student to explore accelerating mechanisms and particle optics in devices such as cyclotrons and linacs. Conclusion: The proposed tools are designed to enhance understanding of abstract concepts by highlighting various aspects of the physics. The simulations serve as

  16. A browser-based 3D Visualization Tool designed for comparing CERES/CALIOP/CloudSAT level-2 data sets.

    Science.gov (United States)

    Chu, C.; Sun-Mack, S.; Chen, Y.; Heckert, E.; Doelling, D. R.

    2017-12-01

    In Langley NASA, Clouds and the Earth's Radiant Energy System (CERES) and Moderate Resolution Imaging Spectroradiometer (MODIS) are merged with Cloud-Aerosol Lidar with Orthogonal Polarization (CALIOP) on the Cloud-Aerosol Lidar and Infrared Pathfinder Satellite Observation (CALIPSO) and CloudSat Cloud Profiling Radar (CPR). The CERES merged product (C3M) matches up to three CALIPSO footprints with each MODIS pixel along its ground track. It then assigns the nearest CloudSat footprint to each of those MODIS pixels. The cloud properties from MODIS, retrieved using the CERES algorithms, are included in C3M with the matched CALIPSO and CloudSat products along with radiances from 18 MODIS channels. The dataset is used to validate the CERES retrieved MODIS cloud properties and the computed TOA and surface flux difference using MODIS or CALIOP/CloudSAT retrieved clouds. This information is then used to tune the computed fluxes to match the CERES observed TOA flux. A visualization tool will be invaluable to determine the cause of these large cloud and flux differences in order to improve the methodology. This effort is part of larger effort to allow users to order the CERES C3M product sub-setted by time and parameter as well as the previously mentioned visualization capabilities. This presentation will show a new graphical 3D-interface, 3D-CERESVis, that allows users to view both passive remote sensing satellites (MODIS and CERES) and active satellites (CALIPSO and CloudSat), such that the detailed vertical structures of cloud properties from CALIPSO and CloudSat are displayed side by side with horizontally retrieved cloud properties from MODIS and CERES. Similarly, the CERES computed profile fluxes whether using MODIS or CALIPSO and CloudSat clouds can also be compared. 3D-CERESVis is a browser-based visualization tool that makes uses of techniques such as multiple synchronized cursors, COLLADA format data and Cesium.

  17. MO-E-18C-04: Advanced Computer Simulation and Visualization Tools for Enhanced Understanding of Core Medical Physics Concepts

    Energy Technology Data Exchange (ETDEWEB)

    Naqvi, S [Saint Agnes Cancer Institute, Department of Radiation Oncology, Baltimore, MD (United States)

    2014-06-15

    Purpose: Most medical physics programs emphasize proficiency in routine clinical calculations and QA. The formulaic aspect of these calculations and prescriptive nature of measurement protocols obviate the need to frequently apply basic physical principles, which, therefore, gradually decay away from memory. E.g. few students appreciate the role of electron transport in photon dose, making it difficult to understand key concepts such as dose buildup, electronic disequilibrium effects and Bragg-Gray theory. These conceptual deficiencies manifest when the physicist encounters a new system, requiring knowledge beyond routine activities. Methods: Two interactive computer simulation tools are developed to facilitate deeper learning of physical principles. One is a Monte Carlo code written with a strong educational aspect. The code can “label” regions and interactions to highlight specific aspects of the physics, e.g., certain regions can be designated as “starters” or “crossers,” and any interaction type can be turned on and off. Full 3D tracks with specific portions highlighted further enhance the visualization of radiation transport problems. The second code calculates and displays trajectories of a collection electrons under arbitrary space/time dependent Lorentz force using relativistic kinematics. Results: Using the Monte Carlo code, the student can interactively study photon and electron transport through visualization of dose components, particle tracks, and interaction types. The code can, for instance, be used to study kerma-dose relationship, explore electronic disequilibrium near interfaces, or visualize kernels by using interaction forcing. The electromagnetic simulator enables the student to explore accelerating mechanisms and particle optics in devices such as cyclotrons and linacs. Conclusion: The proposed tools are designed to enhance understanding of abstract concepts by highlighting various aspects of the physics. The simulations serve as

  18. The pyPHaz software, an interactive tool to analyze and visualize results from probabilistic hazard assessments

    Science.gov (United States)

    Tonini, Roberto; Selva, Jacopo; Costa, Antonio; Sandri, Laura

    2014-05-01

    Probabilistic Hazard Assessment (PHA) is becoming an essential tool for risk mitigation policies, since it allows to quantify the hazard due to hazardous phenomena and, differently from the deterministic approach, it accounts for both aleatory and epistemic uncertainties. On the other hand, one of the main disadvantages of PHA methods is that their results are not easy to understand and interpret by people who are not specialist in probabilistic tools. For scientists, this leads to the issue of providing tools that can be easily used and understood by decision makers (i.e., risk managers or local authorities). The work here presented fits into the problem of simplifying the transfer between scientific knowledge and land protection policies, by providing an interface between scientists, who produce PHA's results, and decision makers, who use PHA's results for risk analyses. In this framework we present pyPHaz, an open tool developed and designed to visualize and analyze PHA results due to one or more phenomena affecting a specific area of interest. The software implementation has been fully developed with the free and open-source Python programming language and some featured Python-based libraries and modules. The pyPHaz tool allows to visualize the Hazard Curves (HC) calculated in a selected target area together with different levels of uncertainty (mean and percentiles) on maps that can be interactively created and modified by the user, thanks to a dedicated Graphical User Interface (GUI). Moreover, the tool can be used to compare the results of different PHA models and to merge them, by creating ensemble models. The pyPHaz software has been designed with the features of storing and accessing all the data through a MySQL database and of being able to read as input the XML-based standard file formats defined in the frame of GEM (Global Earthquake Model). This format model is easy to extend also to any other kind of hazard, as it will be shown in the applications

  19. Visual Support in Children with Autism Spectrum Development as a Tool for Changing Problem Behavior

    Directory of Open Access Journals (Sweden)

    olpakova L.O.,

    2016-10-01

    Full Text Available The paper presents data of observations made in a group of 10 children with autism spectrum disorder aged 5-8 years experiencing behavioral problems and difficulties with communication and social interaction. A behavioral intervention was carried out in the group basing on the principles of applied behavioral analysis (ABA. Following the primary test and with accordance to the parents’ requests, a team of specialists worked over the period of six months attempting to change problem behaviors and to compensate for academic deficiencies in the children. Each day the specialists along with the parents collected data and introduced necessary corrections into the intervention plans. Since all children in the group could barely understand speech and had much difficulty with communication, one of the core methods employed in the work was visual support which became a basic element in every technique applied. Applying visual supports in education settings as well as at home contributed much to the compensation of the difficulties related to speech understanding and helped decrease the level of anxiety in the children, which, in turn, resulted in an apparent decline in problem behavior and faster progress in the acquisition of academic skills.

  20. Lsiviewer 2.0 - a Client-Oriented Online Visualization Tool for Geospatial Vector Data

    Science.gov (United States)

    Manikanta, K.; Rajan, K. S.

    2017-09-01

    Geospatial data visualization systems have been predominantly through applications that are installed and run in a desktop environment. Over the last decade, with the advent of web technologies and its adoption by Geospatial community, the server-client model for data handling, data rendering and visualization respectively has been the most prevalent approach in Web-GIS. While the client devices have become functionally more powerful over the recent years, the above model has largely ignored it and is still in a mode of serverdominant computing paradigm. In this paper, an attempt has been made to develop and demonstrate LSIViewer - a simple, easy-to-use and robust online geospatial data visualisation system for the user's own data that harness the client's capabilities for data rendering and user-interactive styling, with a reduced load on the server. The developed system can support multiple geospatial vector formats and can be integrated with other web-based systems like WMS, WFS, etc. The technology stack used to build this system is Node.js on the server side and HTML5 Canvas and JavaScript on the client side. Various tests run on a range of vector datasets, upto 35 MB, showed that the time taken to render the vector data using LSIViewer is comparable to a desktop GIS application, QGIS, over an identical system.

  1. Considerations on the Use of Visual Tools in Planning Processes: A Brazilian Experience

    Directory of Open Access Journals (Sweden)

    Camila Zyngier

    2014-05-01

    Full Text Available This paper assumes that citizen participation does not really happen in relation to current urban planning practice for a number of reasons. First of all, many planning processes do not involve citizens as ideally they should. Secondly, although if they involve citizens, many planning processes are not able to communicate them the actual questions to deal with. Thirdly, many citizens have not a sufficient knowledge or ability to understand the planning issues. Therefore, the paper supposes that the use of visual interfaces can collaborate to organize data and improve the involvement of citizens within planning processes. Focusing on the Brazilian reality, the case study present two selected areas with great relevance for the Metropolitan Region of Belo Horizonte’s (MRBH: Santa Lúcia, within the municipality of Belo Horizonte, and the neighborhood Vale do Sereno, in the Nova Lima municipality. The areas result under a great pressure and intensification of anthropic interventions, containing consolidated occupancy. The example on the two areas shows how urban planning still lacks a systematization of data. This also implies that the two municipalities not consider the communication of information as a priority for developing cities. Although current information technology can offer advantages for implementing the planning processes though visual languages, harder efforts are required to build the communication process between people, including communication as part of the planning process.

  2. CAGO: a software tool for dynamic visual comparison and correlation measurement of genome organization.

    Directory of Open Access Journals (Sweden)

    Yi-Feng Chang

    Full Text Available CAGO (Comparative Analysis of Genome Organization is developed to address two critical shortcomings of conventional genome atlas plotters: lack of dynamic exploratory functions and absence of signal analysis for genomic properties. With dynamic exploratory functions, users can directly manipulate chromosome tracks of a genome atlas and intuitively identify distinct genomic signals by visual comparison. Signal analysis of genomic properties can further detect inconspicuous patterns from noisy genomic properties and calculate correlations between genomic properties across various genomes. To implement dynamic exploratory functions, CAGO presents each genome atlas in Scalable Vector Graphics (SVG format and allows users to interact with it using a SVG viewer through JavaScript. Signal analysis functions are implemented using R statistical software and a discrete wavelet transformation package waveslim. CAGO is not only a plotter for generating complex genome atlases, but also a platform for exploring genome atlases with dynamic exploratory functions for visual comparison and with signal analysis for comparing genomic properties across multiple organisms. The web-based application of CAGO, its source code, user guides, video demos, and live examples are publicly available and can be accessed at http://cbs.ym.edu.tw/cago.

  3. Open-Loop Audio-Visual Stimulation (AVS): A Useful Tool for Management of Insomnia?

    Science.gov (United States)

    Tang, Hsin-Yi Jean; Riegel, Barbara; McCurry, Susan M; Vitiello, Michael V

    2016-03-01

    Audio Visual Stimulation (AVS), a form of neurofeedback, is a non-pharmacological intervention that has been used for both performance enhancement and symptom management. We review the history of AVS, its two sub-types (close- and open-loop), and discuss its clinical implications. We also describe a promising new application of AVS to improve sleep, and potentially decrease pain. AVS research can be traced back to the late 1800s. AVS's efficacy has been demonstrated for both performance enhancement and symptom management. Although AVS is commonly used in clinical settings, there is limited literature evaluating clinical outcomes and mechanisms of action. One of the challenges to AVS research is the lack of standardized terms, which makes systematic review and literature consolidation difficult. Future studies using AVS as an intervention should; (1) use operational definitions that are consistent with the existing literature, such as AVS, Audio-visual Entrainment, or Light and Sound Stimulation, (2) provide a clear rationale for the chosen training frequency modality, (3) use a randomized controlled design, and (4) follow the Consolidated Standards of Reporting Trials and/or related guidelines when disseminating results.

  4. A malaria diagnostic tool based on computer vision screening and visualization of Plasmodium falciparum candidate areas in digitized blood smears.

    Directory of Open Access Journals (Sweden)

    Nina Linder

    Full Text Available INTRODUCTION: Microscopy is the gold standard for diagnosis of malaria, however, manual evaluation of blood films is highly dependent on skilled personnel in a time-consuming, error-prone and repetitive process. In this study we propose a method using computer vision detection and visualization of only the diagnostically most relevant sample regions in digitized blood smears. METHODS: Giemsa-stained thin blood films with P. falciparum ring-stage trophozoites (n = 27 and uninfected controls (n = 20 were digitally scanned with an oil immersion objective (0.1 µm/pixel to capture approximately 50,000 erythrocytes per sample. Parasite candidate regions were identified based on color and object size, followed by extraction of image features (local binary patterns, local contrast and Scale-invariant feature transform descriptors used as input to a support vector machine classifier. The classifier was trained on digital slides from ten patients and validated on six samples. RESULTS: The diagnostic accuracy was tested on 31 samples (19 infected and 12 controls. From each digitized area of a blood smear, a panel with the 128 most probable parasite candidate regions was generated. Two expert microscopists were asked to visually inspect the panel on a tablet computer and to judge whether the patient was infected with P. falciparum. The method achieved a diagnostic sensitivity and specificity of 95% and 100% as well as 90% and 100% for the two readers respectively using the diagnostic tool. Parasitemia was separately calculated by the automated system and the correlation coefficient between manual and automated parasitemia counts was 0.97. CONCLUSION: We developed a decision support system for detecting malaria parasites using a computer vision algorithm combined with visualization of sample areas with the highest probability of malaria infection. The system provides a novel method for blood smear screening with a significantly reduced need for

  5. ThManager: An Open Source Tool for Creating and Visualizing SKOS

    Directory of Open Access Journals (Sweden)

    Javier Lacasta

    2007-09-01

    Full Text Available Knowledge organization systems denotes formally represented knowledge that is used within the context of digital libraries to improve data sharing and information retrieval. To increase their use, and to reuse them when possible, it is vital to manage them adequately and to provide them in a standard interchange format. Simple knowledge organization systems (SKOS seem to be the most promising representation for the type of knowledge models used in digital libraries, but there is a lack of tools that are able to properly manage it. This work presents a tool that fills this gap, facilitating their use in different environments and using SKOS as an interchange format.

  6. DESIGN & ANALYSIS TOOLS AND TECHNIQUES FOR AEROSPACE STRUCTURES IN A 3D VISUAL ENVIRONMENT

    Directory of Open Access Journals (Sweden)

    Radu BISCA

    2009-09-01

    Full Text Available The main objective of this project is to develop a set of tools and to integrate techniques in a software package which is build on structure analysis applications based on Romanian engineers experience in designing and analysing aerospace structures, consolidated with the most recent methods and techniques. The applications automates the structure’s design and analysis processes and facilitate the exchange of technical information between the partners involved in a complex aerospace project without limiting the domain.

  7. MAVIS: Mobile Acquisition and VISualization -\\ud a professional tool for video recording on a mobile platform

    OpenAIRE

    Watten, Phil; Gilardi, Marco; Holroyd, Patrick; Newbury, Paul

    2015-01-01

    Professional video recording is a complex process which often requires expensive cameras and large amounts of ancillary equipment.\\ud With the advancement of mobile technologies, cameras on mobile devices have improved to the point where the quality of their output is sometimes comparable to that obtained from a professional video camera and are often used in professional productions.\\ud However, tools that allow professional users to access the information they need to control the technical ...

  8. Visual-haptic integration with pliers and tongs: signal ‘weights’ take account of changes in haptic sensitivity caused by different tools

    Directory of Open Access Journals (Sweden)

    Chie eTakahashi

    2014-02-01

    Full Text Available When we hold an object while looking at it, estimates from visual and haptic cues to size are combined in a statistically optimal fashion, whereby the ‘weight’ given to each signal reflects their relative reliabilities. This allows object properties to be estimated more precisely than would otherwise be possible. Tools such as pliers and tongs systematically perturb the mapping between object size and the hand opening. This could complicate visual-haptic integration because it may alter the reliability of the haptic signal, thereby disrupting the determination of appropriate signal weights. To investigate this we first measured the reliability of haptic size estimates made with virtual pliers-like tools (created using a stereoscopic display and force-feedback robots with different ‘gains’ between hand opening and object size. Haptic reliability in tool use was straightforwardly determined by a combination of sensitivity to changes in hand opening and the effects of tool geometry. The precise pattern of sensitivity to hand opening, which violated Weber’s law, meant that haptic reliability changed with tool gain. We then examined whether the visuo-motor system accounts for these reliability changes. We measured the weight given to visual and haptic stimuli when both were available, again with different tool gains, by measuring the perceived size of stimuli in which visual and haptic sizes were varied independently. The weight given to each sensory cue changed with tool gain in a manner that closely resembled the predictions of optimal sensory integration. The results are consistent with the idea that different tool geometries are modelled by the brain, allowing it to calculate not only the distal properties of objects felt with tools, but also the certainty with which those properties are known. These findings highlight the flexibility of human sensory integration and tool-use, and potentially provide an approach for optimising the

  9. Oceans 2.0: Interactive tools for the Visualization of Multi-dimensional Ocean Sensor Data

    Science.gov (United States)

    Biffard, B.; Valenzuela, M.; Conley, P.; MacArthur, M.; Tredger, S.; Guillemot, E.; Pirenne, B.

    2016-12-01

    Ocean Networks Canada (ONC) operates ocean observatories on all three of Canada's coasts. The instruments produce 280 gigabytes of data per day with 1/2 petabyte archived so far. In 2015, 13 terabytes were downloaded by over 500 users from across the world. ONC's data management system is referred to as "Oceans 2.0" owing to its interactive, participative features. A key element of Oceans 2.0 is real time data acquisition and processing: custom device drivers implement the input-output protocol of each instrument. Automatic parsing and calibration takes place on the fly, followed by event detection and quality control. All raw data are stored in a file archive, while the processed data are copied to fast databases. Interactive access to processed data is provided through data download and visualization/quick look features that are adapted to diverse data types (scalar, acoustic, video, multi-dimensional, etc). Data may be post or re-processed to add features, analysis or correct errors, update calibrations, etc. A robust storage structure has been developed consisting of an extensive file system and a no-SQL database (Cassandra). Cassandra is a node-based open source distributed database management system. It is scalable and offers improved performance for big data. A key feature is data summarization. The system has also been integrated with web services and an ERDDAP OPeNDAP server, capable of serving scalar and multidimensional data from Cassandra for fixed or mobile devices.A complex data viewer has been developed making use of the big data capability to interactively display live or historic echo sounder and acoustic Doppler current profiler data, where users can scroll, apply processing filters and zoom through gigabytes of data with simple interactions. This new technology brings scientists one step closer to a comprehensive, web-based data analysis environment in which visual assessment, filtering, event detection and annotation can be integrated.

  10. PACOM: A Versatile Tool for Integrating, Filtering, Visualizing, and Comparing Multiple Large Mass Spectrometry Proteomics Data Sets.

    Science.gov (United States)

    Martínez-Bartolomé, Salvador; Medina-Aunon, J Alberto; López-García, Miguel Ángel; González-Tejedo, Carmen; Prieto, Gorka; Navajas, Rosana; Salazar-Donate, Emilio; Fernández-Costa, Carolina; Yates, John R; Albar, Juan Pablo

    2018-04-06

    Mass-spectrometry-based proteomics has evolved into a high-throughput technology in which numerous large-scale data sets are generated from diverse analytical platforms. Furthermore, several scientific journals and funding agencies have emphasized the storage of proteomics data in public repositories to facilitate its evaluation, inspection, and reanalysis. (1) As a consequence, public proteomics data repositories are growing rapidly. However, tools are needed to integrate multiple proteomics data sets to compare different experimental features or to perform quality control analysis. Here, we present a new Java stand-alone tool, Proteomics Assay COMparator (PACOM), that is able to import, combine, and simultaneously compare numerous proteomics experiments to check the integrity of the proteomic data as well as verify data quality. With PACOM, the user can detect source of errors that may have been introduced in any step of a proteomics workflow and that influence the final results. Data sets can be easily compared and integrated, and data quality and reproducibility can be visually assessed through a rich set of graphical representations of proteomics data features as well as a wide variety of data filters. Its flexibility and easy-to-use interface make PACOM a unique tool for daily use in a proteomics laboratory. PACOM is available at https://github.com/smdb21/pacom .

  11. A Tool for Interactive Data Visualization: Application to Over 10,000 Brain Imaging and Phantom MRI Data Sets

    Directory of Open Access Journals (Sweden)

    Sandeep R Panta

    2016-03-01

    Full Text Available In this paper we propose a web-based approach for quick visualization of big data from brain magnetic resonance imaging (MRI scans using a combination of an automated image capture and processing system, nonlinear embedding, and interactive data visualization tools. We draw upon thousands of MRI scans captured via the COllaborative Imaging and Neuroinformatics Suite (COINS. We then interface the output of several analysis pipelines based on structural and functional data to a t-distributed stochastic neighbor embedding (t-SNE algorithm which reduces the number of dimensions for each scan in the input data set to two dimensions while preserving the local structure of data sets. Finally, we interactively display the output of this approach via a web-page, based on data driven documents (D3 JavaScript library. Two distinct approaches were used to visualize the data. In the first approach, we computed multiple quality control (QC values from pre-processed data, which were used as inputs to the t-SNE algorithm. This approach helps in assessing the quality of each data set relative to others. In the second case, computed variables of interest (e.g. brain volume or voxel values from segmented gray matter images were used as inputs to the t-SNE algorithm. This approach helps in identifying interesting patterns in the data sets. We demonstrate these approaches using multiple examples including 1 quality control measures calculated from phantom data over time, 2 quality control data from human functional MRI data across various studies, scanners, sites, 3 volumetric and density measures from human structural MRI data across various studies, scanners and sites. Results from (1 and (2 show the potential of our approach to combine t-SNE data reduction with interactive color coding of variables of interest to quickly identify visually unique clusters of data (i.e. data sets with poor QC, clustering of data by site quickly. Results from (3 demonstrate

  12. Visual-Haptic Integration: Cue Weights are Varied Appropriately, to Account for Changes in Haptic Reliability Introduced by Using a Tool

    Directory of Open Access Journals (Sweden)

    Chie Takahashi

    2011-10-01

    Full Text Available Tools such as pliers systematically change the relationship between an object's size and the hand opening required to grasp it. Previous work suggests the brain takes this into account, integrating visual and haptic size information that refers to the same object, independent of the similarity of the ‘raw’ visual and haptic signals (Takahashi et al., VSS 2009. Variations in tool geometry also affect the reliability (precision of haptic size estimates, however, because they alter the change in hand opening caused by a given change in object size. Here, we examine whether the brain appropriately adjusts the weights given to visual and haptic size signals when tool geometry changes. We first estimated each cue's reliability by measuring size-discrimination thresholds in vision-alone and haptics-alone conditions. We varied haptic reliability using tools with different object-size:hand-opening ratios (1:1, 0.7:1, and 1.4:1. We then measured the weights given to vision and haptics with each tool, using a cue-conflict paradigm. The weight given to haptics varied with tool type in a manner that was well predicted by the single-cue reliabilities (MLE model; Ernst and Banks, 2002. This suggests that the process of visual-haptic integration appropriately accounts for variations in haptic reliability introduced by different tool geometries.

  13. Math for visualization, visualizing math

    NARCIS (Netherlands)

    Wijk, van J.J.; Hart, G.; Sarhangi, R.

    2013-01-01

    I present an overview of our work in visualization, and reflect on the role of mathematics therein. First, mathematics can be used as a tool to produce visualizations, which is illustrated with examples from information visualization, flow visualization, and cartography. Second, mathematics itself

  14. Visualizing Space Weather: The Planeterrella Auroral Simulator as a Heliophysics Public Outreach Tool

    Science.gov (United States)

    Masongsong, E. V.; Lilensten, J.; Booth, M. J.; Suri, G.; Heflinger, T. G.; Angelopoulos, V.

    2014-12-01

    The NASA THEMIS and ARTEMIS satellite missions study "space weather," which describes the solar wind influence on Earth's protective magnetic shield, the magnetosphere. Space weather is important to study and predict because it can damage critical GPS and communications satellites, harm space travelers, and even disable our global electrical grid. The Planeterrella is an innovative heliophysics outreach demonstration, expanding public awareness of space weather by visualizing the sun-Earth connection up close and in-person. Using a glass vacuum chamber, two magnetized spheres and a 1kV power supply, the device can simulate plasma configurations of the solar corona, solar wind, Van Allen radiation belts, and auroral ovals, all of which are observable only by satellites. This "aurora in a bottle" is a modernized version of the original Terrella built by Kristian Birkeland in the 1890s to show that the aurora are electrical in nature. Adapted from plans by Lilensten et al. at CNRS-IPAG, the UCLA Planeterrella was completed in Nov. 2013, the second device of its kind in the U.S., and the centerpiece of the THEMIS/ARTEMIS mobile public outreach exhibit. In combination with captivating posters, 3D magnetic field models, dazzling aurora videos and magnetosphere animations, the Planeterrella has already introduced over 1200 people to the electrical link between our sun and the planets. Most visitors had seen solar flare images in the news, however the Planeterrella experience enhanced their appreciation of the dynamic solar wind and its effects on Earth's invisible magnetic field. Most importantly, visitors young and old realized that magnets are not just cool toys or only for powering hybrid car motors and MRIs, they are a fundamental aspect of ongoing life on Earth and are key to the formation and evolution of planets, moons, and stars, extending far beyond our galaxy to other planetary systems throughout the universe. Novel visualizations such as the Planeterrella can

  15. Immunogenetic Management Software: a new tool for visualization and analysis of complex immunogenetic datasets.

    Science.gov (United States)

    Johnson, Z P; Eady, R D; Ahmad, S F; Agravat, S; Morris, T; Else, J; Lank, S M; Wiseman, R W; O'Connor, D H; Penedo, M C T; Larsen, C P; Kean, L S

    2012-04-01

    Here we describe the Immunogenetic Management Software (IMS) system, a novel web-based application that permits multiplexed analysis of complex immunogenetic traits that are necessary for the accurate planning and execution of experiments involving large animal models, including nonhuman primates. IMS is capable of housing complex pedigree relationships, microsatellite-based MHC typing data, as well as MHC pyrosequencing expression analysis of class I alleles. It includes a novel, automated MHC haplotype naming algorithm and has accomplished an innovative visualization protocol that allows users to view multiple familial and MHC haplotype relationships through a single, interactive graphical interface. Detailed DNA and RNA-based data can also be queried and analyzed in a highly accessible fashion, and flexible search capabilities allow experimental choices to be made based on multiple, individualized and expandable immunogenetic factors. This web application is implemented in Java, MySQL, Tomcat, and Apache, with supported browsers including Internet Explorer and Firefox on Windows and Safari on Mac OS. The software is freely available for distribution to noncommercial users by contacting Leslie.kean@emory.edu. A demonstration site for the software is available at http://typing.emory.edu/typing_demo , user name: imsdemo7@gmail.com and password: imsdemo.

  16. NASA Giovanni: A Tool for Visualizing, Analyzing, and Inter-comparing Soil Moisture Data

    Science.gov (United States)

    Teng, William; Rui, Hualan; Vollmer, Bruce; deJeu, Richard; Fang, Fan; Lei, Guang-Dih; Parinussa, Robert

    2014-01-01

    There are many existing satellite soil moisture algorithms and their derived data products, but there is no simple way for a user to inter-compare the products or analyze them together with other related data. An environment that facilitates such inter-comparison and analysis would be useful for validation of satellite soil moisture retrievals against in situ data and for determining the relationships between different soil moisture products. As part of the NASA Giovanni (Geospatial Interactive Online Visualization ANd aNalysis Infrastructure) family of portals, which has provided users worldwide with a simple but powerful way to explore NASA data, a beta prototype Giovanni Inter-comparison of Soil Moisture Products portal has been developed. A number of soil moisture data products are currently included in the prototype portal. More will be added, based on user requirements and feedback and as resources become available. Two application examples for the portal are provided. The NASA Giovanni Soil Moisture portal is versatile and extensible, with many possible uses, for research and applications, as well as for the education community.

  17. The practical use of an interactive visualization and planning tool for intervention planning in particle accelerator environments with ionizing radiation

    International Nuclear Information System (INIS)

    Fabry, Thomas; Blaha, Jan; Vanherpe, Liesbeth; Braesch, Christian; Tabourot, Laurent; Feral, Bruno

    2014-01-01

    A core issue during the planning of a maintenance intervention in a facility with ionizing radiation is the minimization of the integrated equivalent dose contracted by the maintenance workers during the intervention. In this work, we explore the use of a technical-scientific software program facilitating the intervention planning in irradiated environments using sound mathematical concepts. We show how the software can be used in planning future operations using a case studies: the decommissioning of a beam dump for a linear 160 MeV H − accelerator. Interactive visualization of the facilities and radiation levels, as well as tools for interactive trajectory planning are explored, as well as automatic calculation of the expected integrated individual dose contracted during an intervention

  18. The practical use of an interactive visualization and planning tool for intervention planning in particle accelerator environments with ionizing radiation

    Energy Technology Data Exchange (ETDEWEB)

    Fabry, Thomas, E-mail: thomas.fabry@cern.ch [European Organization for Nuclear Research, CERN, CH-1211 Genève 23 (Switzerland); Blaha, Jan; Vanherpe, Liesbeth [European Organization for Nuclear Research, CERN, CH-1211 Genève 23 (Switzerland); Braesch, Christian; Tabourot, Laurent [SYMME, Université de Savoie, Polytech Annecy-Chambéry, 5 Chemin de Bellevue, 74944 Annecy le Vieux (France); Feral, Bruno [European Organization for Nuclear Research, CERN, CH-1211 Genève 23 (Switzerland)

    2014-04-11

    A core issue during the planning of a maintenance intervention in a facility with ionizing radiation is the minimization of the integrated equivalent dose contracted by the maintenance workers during the intervention. In this work, we explore the use of a technical-scientific software program facilitating the intervention planning in irradiated environments using sound mathematical concepts. We show how the software can be used in planning future operations using a case studies: the decommissioning of a beam dump for a linear 160 MeV H{sup −} accelerator. Interactive visualization of the facilities and radiation levels, as well as tools for interactive trajectory planning are explored, as well as automatic calculation of the expected integrated individual dose contracted during an intervention.

  19. The practical use of an interactive visualization and planning tool for intervention planning in particle accelerator environments with ionizing radiation

    CERN Document Server

    Fabry, Thomas; Vanherpe, Liesbeth; Braesch, Christian; Tabourot, Laurent; Feral, Bruno

    2014-01-01

    A core issue during the planning of a maintenance intervention in a facility with ionizing radiation is the minimization of the integrated equivalent dose contracted by the maintenance workers during the intervention. In this work, we explore the use of a technical-scientific software program facilitating the intervention planning in irradiated environments using sound mathematical concepts. We show how the software can be used in planning future operations using a case studies: the decommissioning of a beam dump for a linear 160 MeV H− accelerator. Interactive visualization of the facilities and radiation levels, as well as tools for interactive trajectory planning are explored, as well as automatic calculation of the expected integrated individual dose contracted during an intervention.

  20. OECD eXplorer: Making Regional Statistics Come Alive through a Geo-Visual Web-Tool

    Directory of Open Access Journals (Sweden)

    Monica Brezzi

    2011-06-01

    Full Text Available Recent advances in web-enabled graphics technologies have the potential to make a dramatic impact on developing highly interactive Geovisual Analytics applications for the Internet. An emerging and challenging application domain is geovisualization of regional (sub-national statistics. Higher integration drivenby institutional processes and economic globalisation is eroding national borders and creating competition along regional lines in the world market. Sound information at sub-national level and benchmark of regions across borders have gained importance in the policy agenda of many countries. In this paper, we introduce “OECD eXplorer” — an interactive tool for analyzing and communicating gained insights and discoveries about spatial-temporal and multivariate OECD regional data. This database is a potential treasure chest for policy-makers, researchers and citizens to gain a better understanding of a region’s structure and performance and to carry out analysis of territorial trends and disparities based on sound information comparableacross countries. Many approaches and tools have been developed in spatial-related knowledge discovery but generally they do not scale well with dynamic visualization of larger spatial data on the Internet. In this context, we introduce a web-compliant Geovisual Analytics toolkit that supports a broad collection offunctional components for analysis, hypothesis generation and validation. The same tool enables the communicationof results on the basis of a snapshot mechanism that captures, re-uses and shares task-related explorative findings. Further developments underway are in the creation of a generic highly interactive web “eXplorer” platform that can be the foundation for easy customization of similar web applications usingdifferent geographical boundaries and indicators. Given this global dimension, a “generic eXplorer” will be a powerful tool to explore different territorial dimensions

  1. The Application of WebGIS Tools for Visualizing Coastal Flooding Vulnerability and Planning for Resiliency: The New Jersey Experience

    Directory of Open Access Journals (Sweden)

    Richard Lathrop

    2014-03-01

    Full Text Available While sea level rise is a world-wide phenomenon, mitigating its impacts is a local decision-making challenge that is going to require site-specific remedies. Faced with a variety of conflicting mandates and uncertainty as to appropriate responses, local land use planners and managers need place-based decision support tools. With the increasing availability of high-resolution digital elevation models and the advancing speed and sophistication of web-based mapping, a number of web geographic information systems (GIS tools have been developed to map and visualize what areas of a coastal landscape will potentially be flooded under different scenarios of sea level rise. This paper presents a case study of one such WebGIS application, NJFloodMapper (www.NJFloodMapper.org, with a focus on the user-centered design process employed to help our target audience of coastal decision-makers in the state of New Jersey, USA, access and understand relevant geographic information concerning sea level rise and exposure to coastal inundation, as well as assess the vulnerability of key infrastructure, populations and natural resources within their communities. We discuss the success of this approach amidst the broader context of the application of WebGIS tools in this arena. Due to its flexible design and user-friendly interface, NJFloodMapper has been widely adopted by government and non-governmental agencies in the state to assess coastal flooding exposure and vulnerability in the aftermath of a recent destructive coastal storm. However, additional decision support tools are needed to help coastal decision-makers translate the place-based information into concrete action plans aimed at promoting more resilient coastal land use decisions.

  2. Three-dimensional numerical modeling of an induction heated injection molding tool with flow visualization

    DEFF Research Database (Denmark)

    Guerrier, Patrick; Tosello, Guido; Nielsen, Kaspar Kirstein

    2016-01-01

    , comparison of the induction heating and filling of the cavity is compared and validated with simulations. Two polymer materials ABS and HVPC were utilized during the injection molding experiments carried out in this work. A nonlinear electromagnetic model was employed to establish an effective linear......Using elevated mold temperature is known to have a positive influence of final injection molded parts. Induction heating is a method that allow obtaining a rapid thermal cycle, so the overall molding cycle time is not increased. In the present research work, an integrated multi-turn induction...... heating coil has been developed and assembled into an injection molding tool provided with a glass window, so the effect of induction heating can directly be captured by a high speed camera. In addition, thermocouples and pressure sensors are also installed, and together with the high speed videos...

  3. Developing a MATLAB(registered)-Based Tool for Visualization and Transformation

    Science.gov (United States)

    Anderton, Blake J.

    2003-01-01

    An important step in the structural design and development of spacecraft is the experimental identification of a structure s modal characteristics, such as its natural frequencies and modes of vibration. These characteristics are vital to developing a representative model of any given structure or analyzing the range of input frequencies that can be handled by a particular structure. When setting up such a representative model of a structure, careful measurements using precision equipment (such as accelerometers and instrumented hammers) must be made on many individual points of the structure in question. The coordinate location of each data point is used to construct a wireframe geometric model of the structure. Response measurements obtained from the accelerometers is used to generate the modal shapes of the particular structure. Graphically, this is displayed as a combination of the ways a structure will ideally respond to a specified force input. Two types of models of the tested structure are often used in modal analysis: an analytic model showing expected behavior of the structure, and an experimental model showing measured results due to observed phenomena. To evaluate the results from the experimental model, a comparison of analytic and experimental results must be made between the two models. However, comparisons between these two models become difficult when the two coordinate orientations differ in a manner such that results are displayed in an unclear fashion. Such a problem proposes the need for a tool that not only communicates a graphical image of a structure s wireframe geometry based on various measurement locations (called nodes), but also allows for a type of transformation of the image s coordinate geometry so that a model s coordinate orientation is made to match the orientation of another model. Such a tool should also be designed so that it is able to construct coordinate geometry based on many different listings of node locations and is able

  4. SeqVISTA: a graphical tool for sequence feature visualization and comparison

    Directory of Open Access Journals (Sweden)

    Niu Tianhua

    2003-01-01

    Full Text Available Abstract Background Many readers will sympathize with the following story. You are viewing a gene sequence in Entrez, and you want to find whether it contains a particular sequence motif. You reach for the browser's "find in page" button, but those darn spaces every 10 bp get in the way. And what if the motif is on the opposite strand? Subsequently, your favorite sequence analysis software informs you that there is an interesting feature at position 13982–14013. By painstakingly counting the 10 bp blocks, you are able to examine the sequence at this location. But now you want to see what other features have been annotated close by, and this information is buried several screenfuls higher up the web page. Results SeqVISTA presents a holistic, graphical view of features annotated on nucleotide or protein sequences. This interactive tool highlights the residues in the sequence that correspond to features chosen by the user, and allows easy searching for sequence motifs or extraction of particular subsequences. SeqVISTA is able to display results from diverse sequence analysis tools in an integrated fashion, and aims to provide much-needed unity to the bioinformatics resources scattered around the Internet. Our viewer may be launched on a GenBank record by a single click of a button installed in the web browser. Conclusion SeqVISTA allows insights to be gained by viewing the totality of sequence annotations and predictions, which may be more revealing than the sum of their parts. SeqVISTA runs on any operating system with a Java 1.4 virtual machine. It is freely available to academic users at http://zlab.bu.edu/SeqVISTA.

  5. LitPathExplorer: a confidence-based visual text analytics tool for exploring literature-enriched pathway models.

    Science.gov (United States)

    Soto, Axel J; Zerva, Chrysoula; Batista-Navarro, Riza; Ananiadou, Sophia

    2018-04-15

    Pathway models are valuable resources that help us understand the various mechanisms underpinning complex biological processes. Their curation is typically carried out through manual inspection of published scientific literature to find information relevant to a model, which is a laborious and knowledge-intensive task. Furthermore, models curated manually cannot be easily updated and maintained with new evidence extracted from the literature without automated support. We have developed LitPathExplorer, a visual text analytics tool that integrates advanced text mining, semi-supervised learning and interactive visualization, to facilitate the exploration and analysis of pathway models using statements (i.e. events) extracted automatically from the literature and organized according to levels of confidence. LitPathExplorer supports pathway modellers and curators alike by: (i) extracting events from the literature that corroborate existing models with evidence; (ii) discovering new events which can update models; and (iii) providing a confidence value for each event that is automatically computed based on linguistic features and article metadata. Our evaluation of event extraction showed a precision of 89% and a recall of 71%. Evaluation of our confidence measure, when used for ranking sampled events, showed an average precision ranging between 61 and 73%, which can be improved to 95% when the user is involved in the semi-supervised learning process. Qualitative evaluation using pair analytics based on the feedback of three domain experts confirmed the utility of our tool within the context of pathway model exploration. LitPathExplorer is available at http://nactem.ac.uk/LitPathExplorer_BI/. sophia.ananiadou@manchester.ac.uk. Supplementary data are available at Bioinformatics online.

  6. Social media and its dual use in biopreparedness: communication and visualization tools in an animal bioterrorism incident.

    Science.gov (United States)

    Sjöberg, Elisabeth; Barker, Gary C; Landgren, Jonas; Griberg, Isaac; Skiby, Jeffrey E; Tubbin, Anna; von Stapelmohr, Anne; Härenstam, Malin; Jansson, Mikael; Knutsson, Rickard

    2013-09-01

    This article focuses on social media and interactive challenges for emergency organizations during a bioterrorism or agroterrorism incident, and it outlines the dual-use dilemma of social media. Attackers or terrorists can use social media as their modus operandi, and defenders, including emergency organizations in law enforcement and public and animal health, can use it for peaceful purposes. To get a better understanding of the uses of social media in these situations, a workshop was arranged in Stockholm, Sweden, to raise awareness about social media and animal bioterrorism threats. Fifty-six experts and crisis communicators from international and national organizations participated. As a result of the workshop, it was concluded that emergency organizations can collect valuable information and monitor social media before, during, and after an outbreak. In order to make use of interactive communication to obtain collective intelligence from the public, emergency organizations must adapt to social networking technologies, requiring multidisciplinary knowledge in the fields of information, communication, IT, and biopreparedness. Social network messaging during a disease outbreak can be visualized in stream graphs and networks showing clusters of Twitter and Facebook users. The visualization of social media can be an important preparedness tool in the response to bioterrorism and agroterrorism.

  7. Hyper-Fractal Analysis: A visual tool for estimating the fractal dimension of 4D objects

    Science.gov (United States)

    Grossu, I. V.; Grossu, I.; Felea, D.; Besliu, C.; Jipa, Al.; Esanu, T.; Bordeianu, C. C.; Stan, E.

    2013-04-01

    This work presents a new version of a Visual Basic 6.0 application for estimating the fractal dimension of images and 3D objects (Grossu et al. (2010) [1]). The program was extended for working with four-dimensional objects stored in comma separated values files. This might be of interest in biomedicine, for analyzing the evolution in time of three-dimensional images. New version program summaryProgram title: Hyper-Fractal Analysis (Fractal Analysis v03) Catalogue identifier: AEEG_v3_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEEG_v3_0.html Program obtainable from: CPC Program Library, Queen’s University, Belfast, N. Ireland Licensing provisions: Standard CPC license, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 745761 No. of bytes in distributed program, including test data, etc.: 12544491 Distribution format: tar.gz Programming language: MS Visual Basic 6.0 Computer: PC Operating system: MS Windows 98 or later RAM: 100M Classification: 14 Catalogue identifier of previous version: AEEG_v2_0 Journal reference of previous version: Comput. Phys. Comm. 181 (2010) 831-832 Does the new version supersede the previous version? Yes Nature of problem: Estimating the fractal dimension of 4D images. Solution method: Optimized implementation of the 4D box-counting algorithm. Reasons for new version: Inspired by existing applications of 3D fractals in biomedicine [3], we extended the optimized version of the box-counting algorithm [1, 2] to the four-dimensional case. This might be of interest in analyzing the evolution in time of 3D images. The box-counting algorithm was extended in order to support 4D objects, stored in comma separated values files. A new form was added for generating 2D, 3D, and 4D test data. The application was tested on 4D objects with known dimension, e.g. the Sierpinski hypertetrahedron gasket, Df=ln(5)/ln(2) (Fig. 1). The algorithm could be extended, with minimum effort, to

  8. LabKey Server NAb: A tool for analyzing, visualizing and sharing results from neutralizing antibody assays

    Directory of Open Access Journals (Sweden)

    Gao Hongmei

    2011-05-01

    Full Text Available Abstract Background Multiple types of assays allow sensitive detection of virus-specific neutralizing antibodies. For example, the extent of antibody neutralization of HIV-1, SIV and SHIV can be measured in the TZM-bl cell line through the degree of luciferase reporter gene expression after infection. In the past, neutralization curves and titers for this standard assay have been calculated using an Excel macro. Updating all instances of such a macro with new techniques can be unwieldy and introduce non-uniformity across multi-lab teams. Using Excel also poses challenges in centrally storing, sharing and associating raw data files and results. Results We present LabKey Server's NAb tool for organizing, analyzing and securely sharing data, files and results for neutralizing antibody (NAb assays, including the luciferase-based TZM-bl NAb assay. The customizable tool supports high-throughput experiments and includes a graphical plate template designer, allowing researchers to quickly adapt calculations to new plate layouts. The tool calculates the percent neutralization for each serum dilution based on luminescence measurements, fits a range of neutralization curves to titration results and uses these curves to estimate the neutralizing antibody titers for benchmark dilutions. Results, curve visualizations and raw data files are stored in a database and shared through a secure, web-based interface. NAb results can be integrated with other data sources based on sample identifiers. It is simple to make results public after publication by updating folder security settings. Conclusions Standardized tools for analyzing, archiving and sharing assay results can improve the reproducibility, comparability and reliability of results obtained across many labs. LabKey Server and its NAb tool are freely available as open source software at http://www.labkey.com under the Apache 2.0 license. Many members of the HIV research community can also access the Lab

  9. Cytoscape: the network visualization tool for GenomeSpace workflows [v2; ref status: indexed, http://f1000r.es/47f

    Directory of Open Access Journals (Sweden)

    Barry Demchak

    2014-08-01

    Full Text Available Modern genomic analysis often requires workflows incorporating multiple best-of-breed tools. GenomeSpace is a web-based visual workbench that combines a selection of these tools with mechanisms that create data flows between them. One such tool is Cytoscape 3, a popular application that enables analysis and visualization of graph-oriented genomic networks. As Cytoscape runs on the desktop, and not in a web browser, integrating it into GenomeSpace required special care in creating a seamless user experience and enabling appropriate data flows. In this paper, we present the design and operation of the Cytoscape GenomeSpace app, which accomplishes this integration, thereby providing critical analysis and visualization functionality for GenomeSpace users. It has been downloaded over 850 times since the release of its first version in September, 2013.

  10. Cytoscape: the network visualization tool for GenomeSpace workflows [v1; ref status: indexed, http://f1000r.es/3ph

    Directory of Open Access Journals (Sweden)

    Barry Demchak

    2014-07-01

    Full Text Available Modern genomic analysis often requires workflows incorporating multiple best-ofbreed tools. GenomeSpace is a web-based visual workbench that combines a selection of these tools with mechanisms that create data flows between them. One such tool is Cytoscape 3, a popular application that enables analysis and visualization of graph-oriented genomic networks. As Cytoscape runs on the desktop, and not in a web browser, integrating it into GenomeSpace required special care in creating a seamless user experience and enabling appropriate data flows. In this paper, we present the design and operation of the Cytoscape GenomeSpace app, which accomplishes this integration, thereby providing critical analysis and visualization functionality for GenomeSpace users. It has been downloaded it over 850 times since the release of its first version in September, 2013.

  11. Photoinducible bioorthogonal chemistry: a spatiotemporally controllable tool to visualize and perturb proteins in live cells.

    Science.gov (United States)

    Lim, Reyna K V; Lin, Qing

    2011-09-20

    Visualization in biology has been greatly facilitated by the use of fluorescent proteins as in-cell probes. The genes coding for these wavelength-tunable proteins can be readily fused with the DNA coding for a protein of interest, which enables direct monitoring of natural proteins in real time inside living cells. Despite their success, however, fluorescent proteins have limitations that have only begun to be addressed in the past decade through the development of bioorthogonal chemistry. In this approach, a very small bioorthogonal tag is embedded within the basic building blocks of the cell, and then a variety of external molecules can be selectively conjugated to these pretagged biomolecules. The result is a veritable palette of biophysical probes for the researcher to choose from. In this Account, we review our progress in developing a photoinducible, bioorthogonal tetrazole-alkene cycloaddition reaction ("photoclick chemistry") and applying it to probe protein dynamics and function in live cells. The work described here summarizes the synthesis, structure, and reactivity studies of tetrazoles, including their optimization for applications in biology. Building on key insights from earlier reports, our initial studies of the reaction have revealed full water compatibility, high photoactivation quantum yield, tunable photoactivation wavelength, and broad substrate scope; an added benefit is the formation of fluorescent cycloadducts. Subsequent studies have shown fast reaction kinetics (up to 11.0 M(-1) s(-1)), with the rate depending on the HOMO energy of the nitrile imine dipole as well as the LUMO energy of the alkene dipolarophile. Moreover, through the use of photocrystallography, we have observed that the photogenerated nitrile imine adopts a bent geometry in the solid state. This observation has led to the synthesis of reactive, macrocyclic tetrazoles that contain a short "bridge" between two flanking phenyl rings. This photoclick chemistry has been used

  12. Web Viz 2.0: A versatile suite of tools for collaboration and visualization

    Science.gov (United States)

    Spencer, C.; Yuen, D. A.

    2012-12-01

    Most scientific applications on the web fail to realize the full collaborative potential of the internet by not utilizing web 2.0 technology. To relieve users from the struggle with software tools and allow them to focus on their research, new software developed for scientists and researchers must harness the full suite of web technology. For several years WebViz 1.0 enabled researchers with any web accessible device to interact with the peta-scale data generated by the Hierarchical Volume Renderer (HVR) system. We have developed a new iteration of WebViz that can be easily interfaced with many problem domains in addition to HVR by employing the best practices of software engineering and object-oriented programming. This is done by separating the core WebViz system from domain specific code at an interface, leveraging inheritance and polymorphism to allow newly developed modules access to the core services. We employed several design patterns (model-view-controller, singleton, observer, and application controller) to engineer this highly modular system implemented in Java.

  13. First impressions of 3D visual tools and dose volume histograms for plan evaluation

    International Nuclear Information System (INIS)

    Rattray, G.; Simitcioglu, A.; Parkinson, M.; Biggs, J.

    1999-01-01

    Converting from 2D to 3D treatment planning offers numerous challenges. The practices that have evolved in the 2D environment may not be applicable when translated into the 3D environment. One such practice is the methods used to evaluate a plan. In 2D planning a plane by plane comparison method is generally practiced. This type of evaluation method would not be appropriate for plans produced by a 3D planning system. To this end 3D dose displays and Dose Volume Histograms (DVHs) have been developed to facilitate the evaluation of such plans. A survey was conducted to determine the impressions of Radiation Therapists as they used these tools for the first time. The survey involved comparing a number of plans for a small group of patients and selecting the best plan for each patient. Three evaluation methods were assessed. These included the traditional plane by plane, 3D dose display, and DVHs. Those surveyed found the DVH to be the easiest of the three methods to use, with the 3D display being the next easiest. Copyright (1999) Blackwell Science Pty Ltd

  14. Helioviewer.org: An Open-source Tool for Visualizing Solar Data

    Science.gov (United States)

    Hughitt, V. Keith; Ireland, J.; Schmiedel, P.; Dimitoglou, G.; Mueller, D.; Fleck, B.

    2009-05-01

    As the amount of solar data available to scientists continues to increase at faster and faster rates, it is important that there exist simple tools for navigating this data quickly with a minimal amount of effort. By combining heterogeneous solar physics datatypes such as full-disk images and coronagraphs, along with feature and event information, Helioviewer offers a simple and intuitive way to browse multiple datasets simultaneously. Images are stored in a repository using the JPEG 2000 format and tiled dynamically upon a client's request. By tiling images and serving only the portions of the image requested, it is possible for the client to work with very large images without having to fetch all of the data at once. Currently, Helioviewer enables users to browse the entire SOHO data archive, updated hourly, as well as data feature/event catalog data from eight different catalogs including active region, flare, coronal mass ejection, type II radio burst data. In addition to a focus on intercommunication with other virtual observatories and browsers (VSO, HEK, etc), Helioviewer will offer a number of externally-available application programming interfaces (APIs) to enable easy third party use, adoption and extension. Future functionality will include: support for additional data-sources including TRACE, SDO and STEREO, dynamic movie generation, a navigable timeline of recorded solar events, social annotation, and basic client-side image processing.

  15. Atmospheric Radiation Measurement's Data Management Facility captures metadata and uses visualization tools to assist in routine data management.

    Science.gov (United States)

    Keck, N. N.; Macduff, M.; Martin, T.

    2017-12-01

    The Atmospheric Radiation Measurement's (ARM) Data Management Facility (DMF) plays a critical support role in processing and curating data generated by the Department of Energy's ARM Program. Data are collected near real time from hundreds of observational instruments spread out all over the globe. Data are then ingested hourly to provide time series data in NetCDF (network Common Data Format) and includes standardized metadata. Based on automated processes and a variety of user reviews the data may need to be reprocessed. Final data sets are then stored and accessed by users through the ARM Archive. Over the course of 20 years, a suite of data visualization tools have been developed to facilitate the operational processes to manage and maintain the more than 18,000 real time events, that move 1.3 TB of data each day through the various stages of the DMF's data system. This poster will present the resources and methodology used to capture metadata and the tools that assist in routine data management and discoverability.

  16. The Restoration Rapid Assessment Tool: An Access/Visual Basic application

    Science.gov (United States)

    Hiebert, Ron; Larson, D.L.; Thomas, K.; Tancreto, N.; Haines, D.; Richey, A.; Dow, T.; Drees, L.

    2009-01-01

    Managers of parks and natural areas are increasingly faced with difficult decisions concerning restoration of disturbed lands. Financial and workforce resources often limit these restoration efforts, and rarely can a manager afford to address all concerns within the region of interest. With limited resources, managers and scientists have to decide which areas will be targeted for restoration and the restoration treatments to use in these areas. A broad range of approaches are used to make such decisions, from well-researched expert opinions (Cipollini et al. 2005) to gut feeling, with variable degrees of input from site visits, data collection, and data analysis used to support the decision. A standardized approach including an analytical assessment of site characteristics based on the best information available, with a written or electronic record of all the steps taken along the way, would make comparisons among a group of sites easier and lend credibility through use of common, documented criteria at all sites. In response to these concerns, we have developed the Restoration Rapid Assessment Tool (RRAT). RRAT is based on field observations of key indicators of site degradation, stressors influencing the site, value of the site with respect to larger management objectives, likelihood of achieving the management goals, and logistical constraints to restoration. The purpose of RRAT is not to make restoration decisions or prescribe methods, but rather to ensure that a basic set of pertinent issues are considered for each site and to facilitate comparisons among sites. Several concepts have been central to the development of RRAT. First, the management goal (also known as desired future condition) of any site under evaluation should be defined before the field evaluation begins. Second, the evaluation should be based upon readily observable indicators so as to avoid cumbersome field methods. Third, the ease with which site stressors can be ameliorated must be

  17. OmicsNet: a web-based tool for creation and visual analysis of biological networks in 3D space.

    Science.gov (United States)

    Zhou, Guangyan; Xia, Jianguo

    2018-06-07

    Biological networks play increasingly important roles in omics data integration and systems biology. Over the past decade, many excellent tools have been developed to support creation, analysis and visualization of biological networks. However, important limitations remain: most tools are standalone programs, the majority of them focus on protein-protein interaction (PPI) or metabolic networks, and visualizations often suffer from 'hairball' effects when networks become large. To help address these limitations, we developed OmicsNet - a novel web-based tool that allows users to easily create different types of molecular interaction networks and visually explore them in a three-dimensional (3D) space. Users can upload one or multiple lists of molecules of interest (genes/proteins, microRNAs, transcription factors or metabolites) to create and merge different types of biological networks. The 3D network visualization system was implemented using the powerful Web Graphics Library (WebGL) technology that works natively in most major browsers. OmicsNet supports force-directed layout, multi-layered perspective layout, as well as spherical layout to help visualize and navigate complex networks. A rich set of functions have been implemented to allow users to perform coloring, shading, topology analysis, and enrichment analysis. OmicsNet is freely available at http://www.omicsnet.ca.

  18. Development of the IBD Disk: A Visual Self-administered Tool for Assessing Disability in Inflammatory Bowel Diseases.

    Science.gov (United States)

    Ghosh, Subrata; Louis, Edouard; Beaugerie, Laurent; Bossuyt, Peter; Bouguen, Guillaume; Bourreille, Arnaud; Ferrante, Marc; Franchimont, Denis; Frost, Karen; Hebuterne, Xavier; Marshall, John K; OʼShea, Ciara; Rosenfeld, Greg; Williams, Chadwick; Peyrin-Biroulet, Laurent

    2017-03-01

    The Inflammatory bowel disease (IBD) Disability Index is a validated tool that evaluates functional status; however, it is used mainly in the clinical trial setting. We describe the use of an iterative Delphi consensus process to develop the IBD Disk-a shortened, self-administered adaption of the validated IBD Disability Index-to give immediate visual representation of patient-reported IBD-related disability. In the preparatory phase, the IBD CONNECT group (30 health care professionals) ranked IBD Disability Index items in the perceived order of importance. The Steering Committee then selected 10 items from the IBD Disability Index to take forward for inclusion in the IBD Disk. In the consensus phase, the items were refined and agreed by the IBD Disk Working Group (14 gastroenterologists) using an online iterative Delphi consensus process. Members could also suggest new element(s) or recommend changes to included elements. The final items for the IBD Disk were agreed in February 2016. After 4 rounds of voting, the following 10 items were agreed for inclusion in the IBD Disk: abdominal pain, body image, education and work, emotions, energy, interpersonal interactions, joint pain, regulating defecation, sexual functions, and sleep. All elements, except sexual functions, were included in the validated IBD Disability Index. The IBD Disk has the potential to be a valuable tool for use at a clinical visit. It can facilitate assessment of inflammatory bowel disease-related disability relevant to both patients and physicians, discussion on specific disability-related issues, and tracking changes in disease burden over time.

  19. F-18 FLT PET : A Noninvasive Diagnostic Tool for Visualization of the Bone Marrow Compartment in Patients With Aplastic Anemia A Pilot Study

    NARCIS (Netherlands)

    Agool, Ali; Slart, Riemer H. J. A.; Kluin, Philip M.; de Wolf, Joost Th. M.; Dierckx, Rudi A. J. O.; Vellenga, Edo

    Rationale: A discordant relationship between bone marrow cellularity and peripheral blood findings is regularly noticed in patients with aplastic anemia (AA). Therefore, the feasibility of 3-F-18 fluoro-3-deoxy-L-thymidine (F-18 FLT PET was tested as a noninvasive tool to visualize the total

  20. Effects of Online Visual and Interactive Technological Tool (OVITT) on Early Adolescent Students' Mathematics Performance, Math Anxiety and Attitudes toward Math

    Science.gov (United States)

    Orabuchi, Nkechi

    2013-01-01

    This study reported the results of a 3-month quasi-experimental study that determined the effectiveness of an online visual and interactive technological tool on sixth grade students' mathematics performance, math anxiety and attitudes towards math. There were 155 sixth grade students from a middle school in the North Texas area who participated…

  1. Using Social Network Graphs as Visualization Tools to Influence Peer Selection Decision-Making Strategies to Access Information about Complex Socioscientific Issues

    Science.gov (United States)

    Yoon, Susan A.

    2011-01-01

    This study extends previous research that explores how visualization affordances that computational tools provide and social network analyses that account for individual- and group-level dynamic processes can work in conjunction to improve learning outcomes. The study's main hypothesis is that when social network graphs are used in instruction,…

  2. Final Report for Phase II Study: Prototyping the Sketch Planning Visualization Tool for Non-Motorized Travel

    Energy Technology Data Exchange (ETDEWEB)

    Hwang, Ho-Ling [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Wilson, Daniel W [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Reuscher, Tim [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Chin, Shih-Miao [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Taylor, Rob D [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

    2014-02-01

    To further examine how factors such as those identified from the Phase I NMT study, and the modeling framework developed under that effort could be applied to local/regional level planning activities, FHWA decided to pursue a Phase II study. It was determined that a small geographic area with more detailed local data would be necessary. Although Washington D.C. was not one of the 2009 NHTS add-ons, it did conduct a household travel survey of 11,000 households in 2007-2008. The National Capital Region Transportation Planning Board at the Metropolitan Washington Council of Governments (MWCOG) conducted the household travel survey. The data coverage under the MWCOG survey is much higher than that of the NHTS. As a part of the Phase II study, a prototype of a Geographic Information System (GIS)-based sketch planning visualization tool was also to be developed. The intent was to use a neighborhood in the Washington D.C. region as a case study for this prototype application.

  3. A Visualization Tool to Analyse Usage of Web-Based Interventions: The Example of Positive Online Weight Reduction (POWeR)

    Science.gov (United States)

    Smith, Emily; Bradbury, Katherine; Morrison, Leanne; Dennison, Laura; Michaelides, Danius; Yardley, Lucy

    2015-01-01

    Background Attrition is a significant problem in Web-based interventions. Consequently, this research aims to identify the relation between Web usage and benefit from such interventions. A visualization tool has been developed that enables researchers to more easily examine large datasets on intervention usage that can be difficult to make sense of using traditional descriptive or statistical techniques alone. Objective This paper demonstrates how the visualization tool was used to explore patterns in participants’ use of a Web-based weight management intervention, termed "positive online weight reduction (POWeR)." We also demonstrate how the visualization tool can be used to perform subsequent statistical analyses of the association between usage patterns, participant characteristics, and intervention outcome. Methods The visualization tool was used to analyze data from 132 participants who had accessed at least one session of the POWeR intervention. Results There was a drop in usage of optional sessions after participants had accessed the initial, core POWeR sessions, but many users nevertheless continued to complete goal and weight reviews. The POWeR tools relating to the food diary and steps diary were reused most often. Differences in participant characteristics and usage of other intervention components were identified between participants who did and did not choose to access optional POWeR sessions (in addition to the initial core sessions) or reuse the food and steps diaries. Reuse of the steps diary and the getting support tools was associated with greater weight loss. Conclusions The visualization tool provided a quick and efficient method for exploring patterns of Web usage, which enabled further analyses of whether different usage patterns were associated with participant characteristics or differences in intervention outcome. Further usage of visualization techniques is recommended to (1) make sense of large datasets more quickly and efficiently; (2

  4. Visualizing Our Options for Coastal Places: Exploring Realistic Immersive Geovisualizations as Tools for Inclusive Approaches to Coastal Planning and Management

    Directory of Open Access Journals (Sweden)

    Robert Newell

    2017-09-01

    Full Text Available Effective coastal planning is inclusive and incorporates the variety of user needs, values and interests associated with coastal environments. Realistic, immersive geographic visualizations, i.e., geovisualizations, can serve as potentially powerful tools for facilitating such planning because they can provide diverse groups with vivid understandings of how they would feel about certain management outcomes or impacts if transpired in real places. However, the majority of studies in this area have focused on terrestrial environments, and research on applications of such tools in the coastal and marine contexts is in its infancy. The current study aims to advance such research by examining the potential a land-to-sea geovisualization has to serve as a tool for inclusive coastal planning efforts. The research uses Sidney Spit Park (BC, Canada as a study site, and a realistic, dynamic geovisualization of the park was developed (using Unity3D that allows users to interact with and navigate it through the first-person perspective. Management scenarios were developed based on discussions with Parks Canada, and these scenarios included fencing around vegetation areas, positioning of mooring buoys, and management of dog activity within the park. Scenarios were built into the geovisualization in a manner that allows users to toggle different options. Focus groups were then assembled, involving residents of the Capital Regional District (BC, Canada, and participants explored and provided feedback on the scenarios. Findings from the study demonstrate the geovisualization's usefulness for assessing certain qualities of scenarios, such as aesthetics and functionality of fencing options and potential viewshed impacts associated with different mooring boat locations. In addition, the study found that incorporating navigability into the geovisualization proved to be valuable for understanding scenarios that hold implications for the marine environment due to

  5. NeuroTessMesh: A Tool for the Generation and Visualization of Neuron Meshes and Adaptive On-the-Fly Refinement

    Directory of Open Access Journals (Sweden)

    Juan J. Garcia-Cantero

    2017-06-01

    Full Text Available Gaining a better understanding of the human brain continues to be one of the greatest challenges for science, largely because of the overwhelming complexity of the brain and the difficulty of analyzing the features and behavior of dense neural networks. Regarding analysis, 3D visualization has proven to be a useful tool for the evaluation of complex systems. However, the large number of neurons in non-trivial circuits, together with their intricate geometry, makes the visualization of a neuronal scenario an extremely challenging computational problem. Previous work in this area dealt with the generation of 3D polygonal meshes that approximated the cells’ overall anatomy but did not attempt to deal with the extremely high storage and computational cost required to manage a complex scene. This paper presents NeuroTessMesh, a tool specifically designed to cope with many of the problems associated with the visualization of neural circuits that are comprised of large numbers of cells. In addition, this method facilitates the recovery and visualization of the 3D geometry of cells included in databases, such as NeuroMorpho, and provides the tools needed to approximate missing information such as the soma’s morphology. This method takes as its only input the available compact, yet incomplete, morphological tracings of the cells as acquired by neuroscientists. It uses a multiresolution approach that combines an initial, coarse mesh generation with subsequent on-the-fly adaptive mesh refinement stages using tessellation shaders. For the coarse mesh generation, a novel approach, based on the Finite Element Method, allows approximation of the 3D shape of the soma from its incomplete description. Subsequently, the adaptive refinement process performed in the graphic card generates meshes that provide good visual quality geometries at a reasonable computational cost, both in terms of memory and rendering time. All the described techniques have been

  6. New target prediction and visualization tools incorporating open source molecular fingerprints for TB Mobile 2.0.

    Science.gov (United States)

    Clark, Alex M; Sarker, Malabika; Ekins, Sean

    2014-01-01

    We recently developed a freely available mobile app (TB Mobile) for both iOS and Android platforms that displays Mycobacterium tuberculosis (Mtb) active molecule structures and their targets with links to associated data. The app was developed to make target information available to as large an audience as possible. We now report a major update of the iOS version of the app. This includes enhancements that use an implementation of ECFP_6 fingerprints that we have made open source. Using these fingerprints, the user can propose compounds with possible anti-TB activity, and view the compounds within a cluster landscape. Proposed compounds can also be compared to existing target data, using a näive Bayesian scoring system to rank probable targets. We have curated an additional 60 new compounds and their targets for Mtb and added these to the original set of 745 compounds. We have also curated 20 further compounds (many without targets in TB Mobile) to evaluate this version of the app with 805 compounds and associated targets. TB Mobile can now manage a small collection of compounds that can be imported from external sources, or exported by various means such as email or app-to-app inter-process communication. This means that TB Mobile can be used as a node within a growing ecosystem of mobile apps for cheminformatics. It can also cluster compounds and use internal algorithms to help identify potential targets based on molecular similarity. TB Mobile represents a valuable dataset, data-visualization aid and target prediction tool.

  7. PRIDE Inspector Toolsuite: Moving Toward a Universal Visualization Tool for Proteomics Data Standard Formats and Quality Assessment of ProteomeXchange Datasets.

    Science.gov (United States)

    Perez-Riverol, Yasset; Xu, Qing-Wei; Wang, Rui; Uszkoreit, Julian; Griss, Johannes; Sanchez, Aniel; Reisinger, Florian; Csordas, Attila; Ternent, Tobias; Del-Toro, Noemi; Dianes, Jose A; Eisenacher, Martin; Hermjakob, Henning; Vizcaíno, Juan Antonio

    2016-01-01

    The original PRIDE Inspector tool was developed as an open source standalone tool to enable the visualization and validation of mass-spectrometry (MS)-based proteomics data before data submission or already publicly available in the Proteomics Identifications (PRIDE) database. The initial implementation of the tool focused on visualizing PRIDE data by supporting the PRIDE XML format and a direct access to private (password protected) and public experiments in PRIDE.The ProteomeXchange (PX) Consortium has been set up to enable a better integration of existing public proteomics repositories, maximizing its benefit to the scientific community through the implementation of standard submission and dissemination pipelines. Within the Consortium, PRIDE is focused on supporting submissions of tandem MS data. The increasing use and popularity of the new Proteomics Standards Initiative (PSI) data standards such as mzIdentML and mzTab, and the diversity of workflows supported by the PX resources, prompted us to design and implement a new suite of algorithms and libraries that would build upon the success of the original PRIDE Inspector and would enable users to visualize and validate PX "complete" submissions. The PRIDE Inspector Toolsuite supports the handling and visualization of different experimental output files, ranging from spectra (mzML, mzXML, and the most popular peak lists formats) and peptide and protein identification results (mzIdentML, PRIDE XML, mzTab) to quantification data (mzTab, PRIDE XML), using a modular and extensible set of open-source, cross-platform libraries. We believe that the PRIDE Inspector Toolsuite represents a milestone in the visualization and quality assessment of proteomics data. It is freely available at http://github.com/PRIDE-Toolsuite/. © 2016 by The American Society for Biochemistry and Molecular Biology, Inc.

  8. iCAVE: an open source tool for visualizing biomolecular networks in 3D, stereoscopic 3D and immersive 3D.

    Science.gov (United States)

    Liluashvili, Vaja; Kalayci, Selim; Fluder, Eugene; Wilson, Manda; Gabow, Aaron; Gümüs, Zeynep H

    2017-08-01

    Visualizations of biomolecular networks assist in systems-level data exploration in many cellular processes. Data generated from high-throughput experiments increasingly inform these networks, yet current tools do not adequately scale with concomitant increase in their size and complexity. We present an open source software platform, interactome-CAVE (iCAVE), for visualizing large and complex biomolecular interaction networks in 3D. Users can explore networks (i) in 3D using a desktop, (ii) in stereoscopic 3D using 3D-vision glasses and a desktop, or (iii) in immersive 3D within a CAVE environment. iCAVE introduces 3D extensions of known 2D network layout, clustering, and edge-bundling algorithms, as well as new 3D network layout algorithms. Furthermore, users can simultaneously query several built-in databases within iCAVE for network generation or visualize their own networks (e.g., disease, drug, protein, metabolite). iCAVE has modular structure that allows rapid development by addition of algorithms, datasets, or features without affecting other parts of the code. Overall, iCAVE is the first freely available open source tool that enables 3D (optionally stereoscopic or immersive) visualizations of complex, dense, or multi-layered biomolecular networks. While primarily designed for researchers utilizing biomolecular networks, iCAVE can assist researchers in any field. © The Authors 2017. Published by Oxford University Press.

  9. Is the NEI-VFQ-25 a useful tool in identifying visual impairment in an elderly population?

    Directory of Open Access Journals (Sweden)

    Wormald Richard PL

    2006-06-01

    Full Text Available Abstract Background The use of self-report questionnaires to substitute for visual acuity measurement has been limited. We examined the association between visual impairment and self reported visual function in a population sample of older people in the UK. Methods Cross sectional study of people aged more than 75 years who initially participated in a trial of health screening. The association between 25-item National Eye Institute Visual Function Questionnaire (NEI-VFQ scores and visual impairment (defined as an acuity of less than 6/18 in the better eye was examined using logistic regression. Results Visual acuity and NEI-VFQ scores were obtained from 1807 participants (aged 77 to 101 years, 36% male, from 20 general practices throughout the UK. After adjustment for age, gender, practice and NEI-VFQ sub-scale scores, those complaining of poor vision in general were 4.77 times (95% CI 3.03 to 7.53 more likely to be visually impaired compared to those who did not report difficulty. Self-reported limitations with social functioning and dependency on others due to poor vision were also associated with visual impairment (odds ratios, 2.52, 95% CI 1.55 to 4.11; 1.73, 95% CI 1.05 to 2.86 respectively. Those reporting difficulties with near vision and colour vision were more likely to be visually impaired (odds ratios, 2.32, 95% CI 1.30 to 4.15; 2.25, 95% CI 1.35 to 3.73 respectively. Other NEI-VFQ sub-scale scores were unrelated to measures of acuity. Similar but weaker odds ratios were found with reduced visual acuity (defined as less than 6/12 in the better eye. Although differences in NEI-VFQ scores were small, scores were strongly associated with visual acuity, binocular status, and difference in acuity between eyes. Conclusion NEI-VFQ questions regarding the quality of general vision, social functioning, visual dependency, near vision and colour vision are strongly and independently associated with an objective measure of visual impairment in an

  10. Visualization portal for genetic variation (VizGVar): a tool for interactive visualization of SNPs and somatic mutations in exons, genes and protein domains.

    Science.gov (United States)

    Solano-Román, Antonio; Alfaro-Arias, Verónica; Cruz-Castillo, Carlos; Orozco-Solano, Allan

    2018-03-15

    VizGVar was designed to meet the growing need of the research community for improved genomic and proteomic data viewers that benefit from better information visualization. We implemented a new information architecture and applied user centered design principles to provide a new improved way of visualizing genetic information and protein data related to human disease. VizGVar connects the entire database of Ensembl protein motifs, domains, genes and exons with annotated SNPs and somatic variations from PharmGKB and COSMIC. VizGVar precisely represents genetic variations and their respective location by colored curves to designate different types of variations. The structured hierarchy of biological data is reflected in aggregated patterns through different levels, integrating several layers of information at once. VizGVar provides a new interactive, web-based JavaScript visualization of somatic mutations and protein variation, enabling fast and easy discovery of clinically relevant variation patterns. VizGVar is accessible at http://vizport.io/vizgvar; http://vizport.io/vizgvar/doc/. asolano@broadinstitute.org or allan.orozcosolano@ucr.ac.cr.

  11. Visual Control of Locomotion

    National Research Council Canada - National Science Library

    Loomis, Jack M; Beall, Andrew C

    2005-01-01

    The accomplishments were threefold. First, a software tool for rendering virtual environments was developed, a tool useful for other researchers interested in visual perception and visual control of action...

  12. Effects of Visual Communication Tool and Separable Status Display on Team Performance and Subjective Workload in Air Battle Management

    National Research Council Canada - National Science Library

    Schwartz, Daniel; Knott, Benjamin A; Galster, Scott M

    2008-01-01

    ... ambient cabin noise while performing several visual and manual tasks. The purpose of this study is to compare team performance and subjective workload on a simulated AWACS scenario, for two conditions of communication...

  13. Neuro-ocular damage in pediatric oncology patients: predictor of long-term visual disability or tool for limiting toxicity

    International Nuclear Information System (INIS)

    Newman, N.M.; Donaldson, S.; de Wit, S.; King, O.; Wilbur, J.R.

    1986-01-01

    We present a group of eight pediatric cancer patients with a spectrum of visual afferent pathway abnormalities. Changes include decreased visual acuity, visual field alterations, abnormal visual evoked potentials, changes in the optic disc and nerve fiber layer of the retina, radiation retinopathy, and CNS injury. These changes occur in long term survivors of pediatric malignancy (especially those with prolonged, multimodal, and multicourse therapy), but they may be minimally symptomatic. The changes appear to be analogous to the CNS changes (leukoencephalopathy) described in patients with leukemia and attributed to multimodal therapy. By taking advantage of opportunities to detect adverse effects earlier in the treatment course, the present excellent cure rate may be improved by refinements in therapy that also improve the quality of survival

  14. Steady-state multifocal visual evoked potential (ssmfVEP) using dartboard stimulation as a possible tool for objective visual field assessment.

    Science.gov (United States)

    Horn, Folkert K; Selle, Franziska; Hohberger, Bettina; Kremers, Jan

    2016-02-01

    To investigate whether a conventional, monitor-based multifocal visual evoked potential (mfVEP) system can be used to record steady-state mfVEP (ssmfVEP) in healthy subjects and to study the effects of temporal frequency, electrode configuration and alpha waves. Multifocal pattern reversal VEP measurements were performed at 58 dartboard fields using VEP recording equipment. The responses were measured using m-sequences with four pattern reversals per m-step. Temporal frequencies were varied between 6 and 15 Hz. Recordings were obtained from nine normal subjects with a cross-shaped, four-electrode device (two additional channels were derived). Spectral analyses were performed on the responses at all locations. The signal to noise ratio (SNR) was computed for each response using the signal amplitude at the reversal frequency and the noise at the neighbouring frequencies. Most responses in the ssmfVEP were significantly above noise. The SNR was largest for an 8.6-Hz reversal frequency. The individual alpha electroencephalogram (EEG) did not strongly influence the results. The percentage of the records in which each of the 6 channels had the largest SNR was between 10.0 and 25.2 %. Our results in normal subjects indicate that reliable mfVEP responses can be achieved by steady-state stimulation using a conventional dartboard stimulator and multi-channel electrode device. The ssmfVEP may be useful for objective visual field assessment as spectrum analysis can be used for automated evaluation of responses. The optimal reversal frequency is 8.6 Hz. Alpha waves have only a minor influence on the analysis. Future studies must include comparisons with conventional mfVEP and psychophysical visual field tests.

  15. Visual Interpretation with Three-Dimensional Annotations (VITA): Three-Dimensional Image Interpretation Tool for Radiological Reporting

    OpenAIRE

    Roy, Sharmili; Brown, Michael S.; Shih, George L.

    2013-01-01

    This paper introduces a software framework called Visual Interpretation with Three-Dimensional Annotations (VITA) that is able to automatically generate three-dimensional (3D) visual summaries based on radiological annotations made during routine exam reporting. VITA summaries are in the form of rotating 3D volumes where radiological annotations are highlighted to place important clinical observations into a 3D context. The rendered volume is produced as a Digital Imaging and Communications i...

  16. CellNetVis: a web tool for visualization of biological networks using force-directed layout constrained by cellular components.

    Science.gov (United States)

    Heberle, Henry; Carazzolle, Marcelo Falsarella; Telles, Guilherme P; Meirelles, Gabriela Vaz; Minghim, Rosane

    2017-09-13

    The advent of "omics" science has brought new perspectives in contemporary biology through the high-throughput analyses of molecular interactions, providing new clues in protein/gene function and in the organization of biological pathways. Biomolecular interaction networks, or graphs, are simple abstract representations where the components of a cell (e.g. proteins, metabolites etc.) are represented by nodes and their interactions are represented by edges. An appropriate visualization of data is crucial for understanding such networks, since pathways are related to functions that occur in specific regions of the cell. The force-directed layout is an important and widely used technique to draw networks according to their topologies. Placing the networks into cellular compartments helps to quickly identify where network elements are located and, more specifically, concentrated. Currently, only a few tools provide the capability of visually organizing networks by cellular compartments. Most of them cannot handle large and dense networks. Even for small networks with hundreds of nodes the available tools are not able to reposition the network while the user is interacting, limiting the visual exploration capability. Here we propose CellNetVis, a web tool to easily display biological networks in a cell diagram employing a constrained force-directed layout algorithm. The tool is freely available and open-source. It was originally designed for networks generated by the Integrated Interactome System and can be used with networks from others databases, like InnateDB. CellNetVis has demonstrated to be applicable for dynamic investigation of complex networks over a consistent representation of a cell on the Web, with capabilities not matched elsewhere.

  17. Visualization of scientific data for high energy physics: PAW, a general-purpose portable software tool for data analysis and presentation

    International Nuclear Information System (INIS)

    Brun, R.; Couet, O.; Vandoni, C.E.; Zanarini, P.

    1990-01-01

    Visualization of scientific data although a fashionable word in the world of computer graphics, is not a new invention, but it is hundreds years old. With the advent of computer graphics the visualization of Scientific Data has now become a well understood and widely used technology, with hundreds of applications in the most different fields, ranging from media applications to real scientific ones. In the present paper, we shall discuss the design concepts of the Visualization of Scientific Data systems in particular in the specific field of High Energy Physics. During the last twenty years, CERN has played a leading role as the focus for development of packages and software libraries to solve problems related to High Energy Physics (HEP). The results of the integration of resources from many different Laboratories can be expressed in several million lines of code written at CERN during this period of time, used at CERN and distributed to collaborating laboratories. Nowadays, this role of software developer is considered very important by the entire HEP community. In this paper a large software package, where man-machine interaction and graphics play a key role (PAW-Physics Analysis Workstation), is described. PAW is essentially an interactive system which includes many different software tools, strongly oriented towards data analysis and data presentation. Some of these tools have been available in different forms and with different human interfaces for several years. 6 figs

  18. Could a multimodal dictionary serve as a learning tool? An examination of the impact of technologically enhanced visual glosses on L2 text comprehension

    Directory of Open Access Journals (Sweden)

    Takeshi Sato

    2016-09-01

    Full Text Available This study examines the efficacy of a multimodal online bilingual dictionary based on cognitive linguistics in order to explore the advantages and limitations of explicit multimodal L2 vocabulary learning. Previous studies have examined the efficacy of the verbal and visual representation of words while reading L2 texts, concluding that it facilitates incidental word retention. This study explores other potentials of multimodal L2 vocabulary learning: explicit learning with a multimodal dictionary could enhance not only word retention, but also text comprehension; the dictionary could serve not only as a reference tool, but also as a learning tool; and technology-enhanced visual glosses could facilitate deeper text comprehension. To verify these claims, this study investigates the multimodal representations’ effects on Japanese students learning L2 locative prepositions by developing two online dictionaries, one with static pictures and one with animations. The findings show the advantage of such dictionaries in explicit learning; however, no significant differences are found between the two types of visual glosses, either in the vocabulary or in the listening tests. This study confirms the effectiveness of multimodal L2 materials, but also emphasizes the need for further research into making the technologically enhanced materials more effective.

  19. Development of an Arabic version of the National Eye Institute Visual Function Questionnaire as a tool to study eye diseases patients in Egypt

    Directory of Open Access Journals (Sweden)

    Nizar Saleh Abdelfattah

    2014-10-01

    Full Text Available AIM:To develop and test an Arabic version of the National Eye Institute Visual Function Questionnaire-25 (NEI-VFQ-25.METHODS:NEI-VFQ-25 was translated into Arabic according to WHO translation guidelines. We enrolled adult consenting patients with bilateral chronic eye diseases who presented to 14 hospitals across Egypt from October to December 2012, and documented their clinical findings. Psychometric properties were then tested using STATA.RESULTS:We recruited 379 patients, whose mean age was (54.5±15y. Of 46.2% were males, 227 had cataract, 31 had glaucoma, 23 had retinal detachment, 37 had diabetic retinopathy, and 61 had miscellaneous visual defects. Non-response rate and the floor and ceiling numbers of the Arabic version (ARB-VFQ-25 were calculated. Internal consistency was high in all subscales (except general health, with Cronbach-α ranging from 0.702-0.911. Test-retest reliability was high (intraclass correlation coefficient 0.79.CONCLUSION:ARB-VFQ-25 is a reliable and valid tool for assessing visual functions of Arabic speaking patients. However, some questions had high non-response rates and should be substituted by available alternatives. Our results support the importance of including self-reported visual functions as part of routine ophthalmologic examination.

  20. Visual Approach and Design: The Appropriate Characteristics of Instructional Photos as a Tool to Support Elementary Setting in Kuwait

    Science.gov (United States)

    Buhamad, Ali

    2016-01-01

    This study provided a guide for appropriate characteristics of Instructional Photo to be used by teachers, trainers, coaches, instructors, and anyone else who desires to deliver knowledge and present content with visual meaning to elementary students in the state of Kuwait as a teaching style that supports teachers, facilitates clarification, and…

  1. Accuracy and Feasibility of an Android-Based Digital Assessment Tool for Post Stroke Visual Disorders—The StrokeVision App

    Directory of Open Access Journals (Sweden)

    Terence J. Quinn

    2018-03-01

    detection of a stroke-related field defect. This compares with 79% sensitivity and 88% specificity for StrokeVision digital assessment.ConclusionStrokeVision shows promise as a screening tool for visual complications in the acute phase of stroke. The app is at least as good as usual screening and offers other functionality that may make it attractive for use in acute stroke.Clinical Trial Registrationhttps://ClinicalTrials.gov/ct2/show/NCT02539381.

  2. Accuracy and Feasibility of an Android-Based Digital Assessment Tool for Post Stroke Visual Disorders-The StrokeVision App.

    Science.gov (United States)

    Quinn, Terence J; Livingstone, Iain; Weir, Alexander; Shaw, Robert; Breckenridge, Andrew; McAlpine, Christine; Tarbert, Claire M

    2018-01-01

    . This compares with 79% sensitivity and 88% specificity for StrokeVision digital assessment. StrokeVision shows promise as a screening tool for visual complications in the acute phase of stroke. The app is at least as good as usual screening and offers other functionality that may make it attractive for use in acute stroke. https://ClinicalTrials.gov/ct2/show/NCT02539381.

  3. On a new visualization tool for quantum systems and on a time-optimal control problem for quantum gates

    International Nuclear Information System (INIS)

    Garon, Ariane

    2014-01-01

    Since the foundations of quantum physics have been laid, our knowledge of it never ceased to grow and this field of science naturally split into diverse specialized branches. The first part of this thesis focuses on a problem which concerns all branches of quantum physics, which is the visualization of quantum systems. The non-intuitive aspect of quantum physics justifies a shared desire to visualize quantum systems. In the present work, we develop a method to visualize any operators in these systems, including in particular state operators (density matrices), Hamiltonians and propagators. The method, referred to as DROPS (Discrete Representation of spin OPeratorS), is based on a generalization of Wigner representations, presented in this document. The resulting visualization of an operator A is called its DROPS representation or visualization. We demonstrate its intuitive character by illustrating a series of concepts in nuclear magnetic resonance (NMR) spectroscopy for systems consisting of two spin-1/2 particles. The second part of this thesis is concerned with a problem of optimal control which finds applications in the fields of NMR spectroscopy, medical imagery and quantum computing, to cite a few. The problem of creating a propagator in the shortest amount of time is considered, and the results are extended to solve the closely related problem of creating rotations in the smallest amount of time. The approach used here differs from the previous results on the subject by solving the problem using the Pontryagin's maximum principle and by its detailed consideration of singular controls and trajectories.

  4. Microsurgical Clipping of an Anterior Communicating Artery Aneurysm Using a Novel Robotic Visualization Tool in Lieu of the Binocular Operating Microscope: Operative Video.

    Science.gov (United States)

    Klinger, Daniel R; Reinard, Kevin A; Ajayi, Olaide O; Delashaw, Johnny B

    2018-01-01

    The binocular operating microscope has been the visualization instrument of choice for microsurgical clipping of intracranial aneurysms for many decades. To discuss recent technological advances that have provided novel visualization tools, which may prove to be superior to the binocular operating microscope in many regards. We present an operative video and our operative experience with the BrightMatterTM Servo System (Synaptive Medical, Toronto, Ontario, Canada) during the microsurgical clipping of an anterior communicating artery aneurysm. To the best of our knowledge, the use of this device for the microsurgical clipping of an intracranial aneurysm has never been described in the literature. The BrightMatterTM Servo System (Synaptive Medical) is a surgical exoscope which avoids many of the ergonomic constraints of the binocular operating microscope, but is associated with a steep learning curve. The BrightMatterTM Servo System (Synaptive Medical) is a maneuverable surgical exoscope that is positioned with a directional aiming device and a surgeon-controlled foot pedal. While utilizing this device comes with a steep learning curve typical of any new technology, the BrightMatterTM Servo System (Synaptive Medical) has several advantages over the conventional surgical microscope, which include a relatively unobstructed surgical field, provision of high-definition images, and visualization of difficult angles/trajectories. This device can easily be utilized as a visualization tool for a variety of cranial and spinal procedures in lieu of the binocular operating microscope. We anticipate that this technology will soon become an integral part of the neurosurgeon's armamentarium. Copyright © 2017 by the Congress of Neurological Surgeons

  5. Open-source web-enabled data management, analyses, and visualization of very large data in geosciences using Jupyter, Apache Spark, and community tools

    Science.gov (United States)

    Chaudhary, A.

    2017-12-01

    Current simulation models and sensors are producing high-resolution, high-velocity data in geosciences domain. Knowledge discovery from these complex and large size datasets require tools that are capable of handling very large data and providing interactive data analytics features to researchers. To this end, Kitware and its collaborators are producing open-source tools GeoNotebook, GeoJS, Gaia, and Minerva for geosciences that are using hardware accelerated graphics and advancements in parallel and distributed processing (Celery and Apache Spark) and can be loosely coupled to solve real-world use-cases. GeoNotebook (https://github.com/OpenGeoscience/geonotebook) is co-developed by Kitware and NASA-Ames and is an extension to the Jupyter Notebook. It provides interactive visualization and python-based analysis of geospatial data and depending the backend (KTile or GeoPySpark) can handle data sizes of Hundreds of Gigabytes to Terabytes. GeoNotebook uses GeoJS (https://github.com/OpenGeoscience/geojs) to render very large geospatial data on the map using WebGL and Canvas2D API. GeoJS is more than just a GIS library as users can create scientific plots such as vector and contour and can embed InfoVis plots using D3.js. GeoJS aims for high-performance visualization and interactive data exploration of scientific and geospatial location aware datasets and supports features such as Point, Line, Polygon, and advanced features such as Pixelmap, Contour, Heatmap, and Choropleth. Our another open-source tool Minerva ((https://github.com/kitware/minerva) is a geospatial application that is built on top of open-source web-based data management system Girder (https://github.com/girder/girder) which provides an ability to access data from HDFS or Amazon S3 buckets and provides capabilities to perform visualization and analyses on geosciences data in a web environment using GDAL and GeoPandas wrapped in a unified API provided by Gaia (https

  6. Explore Earth Science Datasets for STEM with the NASA GES DISC Online Visualization and Analysis Tool, Giovanni

    Science.gov (United States)

    Liu, Z.; Acker, J.; Kempler, S.

    2016-01-01

    The NASA Goddard Earth Sciences (GES) Data and Information Services Center(DISC) is one of twelve NASA Science Mission Directorate (SMD) Data Centers that provide Earth science data, information, and services to users around the world including research and application scientists, students, citizen scientists, etc. The GESDISC is the home (archive) of remote sensing datasets for NASA Precipitation and Hydrology, Atmospheric Composition and Dynamics, etc. To facilitate Earth science data access, the GES DISC has been developing user-friendly data services for users at different levels in different countries. Among them, the Geospatial Interactive Online Visualization ANd aNalysis Infrastructure (Giovanni, http:giovanni.gsfc.nasa.gov) allows users to explore satellite-based datasets using sophisticated analyses and visualization without downloading data and software, which is particularly suitable for novices (such as students) to use NASA datasets in STEM (science, technology, engineering and mathematics) activities. In this presentation, we will briefly introduce Giovanni along with examples for STEM activities.

  7. A Visual Basic simulation software tool for performance analysis of a membrane-based advanced water treatment plant.

    Science.gov (United States)

    Pal, P; Kumar, R; Srivastava, N; Chaudhuri, J

    2014-02-01

    A Visual Basic simulation software (WATTPPA) has been developed to analyse the performance of an advanced wastewater treatment plant. This user-friendly and menu-driven software is based on the dynamic mathematical model for an industrial wastewater treatment scheme that integrates chemical, biological and membrane-based unit operations. The software-predicted results corroborate very well with the experimental findings as indicated in the overall correlation coefficient of the order of 0.99. The software permits pre-analysis and manipulation of input data, helps in optimization and exhibits performance of an integrated plant visually on a graphical platform. It allows quick performance analysis of the whole system as well as the individual units. The software first of its kind in its domain and in the well-known Microsoft Excel environment is likely to be very useful in successful design, optimization and operation of an advanced hybrid treatment plant for hazardous wastewater.

  8. Strategy Planning Visualization Tool (SPVT) for the Air Operations Center (AOC) Volume I: SPVT Summary and COA Sketch

    Science.gov (United States)

    2009-12-01

    communication events to a specific team member or device, the time to create a product, or a planner’s workload via the NASA TLX . Qualitative metrics...HPW/RHXB, Commander’s Predictive Environment program – SMART), IWPC (GDAIS), Capt. DuBose and Mr. Matt Trippy ESC 950th ELSG Joint IO Planning...primary visualization and information components unique to GEM-S include Operations, Activities & Actions (OAA), Lines of Effects (LOE), IO Assessment

  9. Visual object-oriented technology and case-tools of developing the Internet / Intranet-oriented training courses

    Directory of Open Access Journals (Sweden)

    Salaimeh S. A.

    2017-12-01

    Full Text Available New information technologies, modern computers, LAN, WAN networks enable us to modernize the whole education system. One of the most perspective ways of the modern educational system’s development is online education. The questions of developing the visual instrumental system PIECE designed to automate processes of creation the cross- platform hypermedia training and controlling course (HTCC are viewed in this paper.

  10. Identifying shared genetic structure patterns among Pacific Northwest forest taxa: insights from use of visualization tools and computer simulations.

    Directory of Open Access Journals (Sweden)

    Mark P Miller

    2010-10-01

    Full Text Available Identifying causal relationships in phylogeographic and landscape genetic investigations is notoriously difficult, but can be facilitated by use of multispecies comparisons.We used data visualizations to identify common spatial patterns within single lineages of four taxa inhabiting Pacific Northwest forests (northern spotted owl: Strix occidentalis caurina; red tree vole: Arborimus longicaudus; southern torrent salamander: Rhyacotriton variegatus; and western white pine: Pinus monticola. Visualizations suggested that, despite occupying the same geographical region and habitats, species responded differently to prevailing historical processes. S. o. caurina and P. monticola demonstrated directional patterns of spatial genetic structure where genetic distances and diversity were greater in southern versus northern locales. A. longicaudus and R. variegatus displayed opposite patterns where genetic distances were greater in northern versus southern regions. Statistical analyses of directional patterns subsequently confirmed observations from visualizations. Based upon regional climatological history, we hypothesized that observed latitudinal patterns may have been produced by range expansions. Subsequent computer simulations confirmed that directional patterns can be produced by expansion events.We discuss phylogeographic hypotheses regarding historical processes that may have produced observed patterns. Inferential methods used here may become increasingly powerful as detailed simulations of organisms and historical scenarios become plausible. We further suggest that inter-specific comparisons of historical patterns take place prior to drawing conclusions regarding effects of current anthropogenic change within landscapes.

  11. Visual Interpretation with Three-Dimensional Annotations (VITA): three-dimensional image interpretation tool for radiological reporting.

    Science.gov (United States)

    Roy, Sharmili; Brown, Michael S; Shih, George L

    2014-02-01

    This paper introduces a software framework called Visual Interpretation with Three-Dimensional Annotations (VITA) that is able to automatically generate three-dimensional (3D) visual summaries based on radiological annotations made during routine exam reporting. VITA summaries are in the form of rotating 3D volumes where radiological annotations are highlighted to place important clinical observations into a 3D context. The rendered volume is produced as a Digital Imaging and Communications in Medicine (DICOM) object and is automatically added to the study for archival in Picture Archiving and Communication System (PACS). In addition, a video summary (e.g., MPEG4) can be generated for sharing with patients and for situations where DICOM viewers are not readily available to referring physicians. The current version of VITA is compatible with ClearCanvas; however, VITA can work with any PACS workstation that has a structured annotation implementation (e.g., Extendible Markup Language, Health Level 7, Annotation and Image Markup) and is able to seamlessly integrate into the existing reporting workflow. In a survey with referring physicians, the vast majority strongly agreed that 3D visual summaries improve the communication of the radiologists' reports and aid communication with patients.

  12. Ssecrett and neuroTrace: Interactive visualization and analysis tools for large-scale neuroscience data sets

    KAUST Repository

    Jeong, Wonki; Beyer, Johanna; Hadwiger, Markus; Blue, Rusty; Law, Charles; Vá zquez Reina, Amelio; Reid, Rollie Clay; Lichtman, Jeff W M D; Pfister, Hanspeter

    2010-01-01

    Recent advances in optical and electron microscopy let scientists acquire extremely high-resolution images for neuroscience research. Data sets imaged with modern electron microscopes can range between tens of terabytes to about one petabyte. These large data sizes and the high complexity of the underlying neural structures make it very challenging to handle the data at reasonably interactive rates. To provide neuroscientists flexible, interactive tools, the authors introduce Ssecrett and NeuroTrace, two tools they designed for interactive exploration and analysis of large-scale optical- and electron-microscopy images to reconstruct complex neural circuits of the mammalian nervous system. © 2010 IEEE.

  13. Ssecrett and neuroTrace: Interactive visualization and analysis tools for large-scale neuroscience data sets

    KAUST Repository

    Jeong, Wonki

    2010-05-01

    Recent advances in optical and electron microscopy let scientists acquire extremely high-resolution images for neuroscience research. Data sets imaged with modern electron microscopes can range between tens of terabytes to about one petabyte. These large data sizes and the high complexity of the underlying neural structures make it very challenging to handle the data at reasonably interactive rates. To provide neuroscientists flexible, interactive tools, the authors introduce Ssecrett and NeuroTrace, two tools they designed for interactive exploration and analysis of large-scale optical- and electron-microscopy images to reconstruct complex neural circuits of the mammalian nervous system. © 2010 IEEE.

  14. Communicating Ocean Acidification and Climate Change to Public Audiences Using Scientific Data, Interactive Exploration Tools, and Visual Narratives

    Science.gov (United States)

    Miller, M. K.; Rossiter, A.; Spitzer, W.

    2016-12-01

    The Exploratorium, a hands-on science museum, explores local environmental conditions of San Francisco Bay to connect audiences to the larger global implications of ocean acidification and climate change. The work is centered in the Fisher Bay Observatory at Pier 15, a glass-walled gallery sited for explorations of urban San Francisco and the Bay. Interactive exhibits, high-resolution data visualizations, and mediated activities and conversations communicate to public audiences the impacts of excess carbon dioxide in the atmosphere and ocean. Through a 10-year education partnership with NOAA and two environmental literacy grants funded by its Office of Education, the Exploratorium has been part of two distinct but complementary strategies to increase climate literacy beyond traditional classroom settings. We will discuss two projects that address the ways complex scientific information can be transformed into learning opportunities for the public, providing information citizens can use for decision-making in their personal lives and their communities. The Visualizing Change project developed "visual narratives" that combine scientific visualizations and other images with story telling about the science and potential solutions of climate impacts on the ocean. The narratives were designed to engage curiosity and provide the public with hopeful and useful information to stimulate solutions-oriented behavior rather than to communicate despair about climate change. Training workshops for aquarium and museum docents prepare informal educators to use the narratives and help them frame productive conversations with the pubic. The Carbon Networks project, led by the Exploratorium, uses local and Pacific Rim data to explore the current state of climate change and ocean acidification. The Exploratorium collects and displays local ocean and atmosphere data as a member of the Central and Northern California Ocean Observing System and as an observing station for NOAA's Pacific

  15. Exploratory search in an audio-visual archive: evaluating a professional search tool for non-professional users

    NARCIS (Netherlands)

    Bron, M.; van Gorp, J.; Nack, F.; de Rijke, M.

    2011-01-01

    As archives are opening up and publishing their content online, the general public can now directly access archive collections. To support access, archives typically provide the public with their internal search tools that were originally intended for professional archivists. We conduct a

  16. TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks

    Directory of Open Access Journals (Sweden)

    Lepoivre Cyrille

    2012-01-01

    Full Text Available Abstract Background Deciphering gene regulatory networks by in silico approaches is a crucial step in the study of the molecular perturbations that occur in diseases. The development of regulatory maps is a tedious process requiring the comprehensive integration of various evidences scattered over biological databases. Thus, the research community would greatly benefit from having a unified database storing known and predicted molecular interactions. Furthermore, given the intrinsic complexity of the data, the development of new tools offering integrated and meaningful visualizations of molecular interactions is necessary to help users drawing new hypotheses without being overwhelmed by the density of the subsequent graph. Results We extend the previously developed TranscriptomeBrowser database with a set of tables containing 1,594,978 human and mouse molecular interactions. The database includes: (i predicted regulatory interactions (computed by scanning vertebrate alignments with a set of 1,213 position weight matrices, (ii potential regulatory interactions inferred from systematic analysis of ChIP-seq experiments, (iii regulatory interactions curated from the literature, (iv predicted post-transcriptional regulation by micro-RNA, (v protein kinase-substrate interactions and (vi physical protein-protein interactions. In order to easily retrieve and efficiently analyze these interactions, we developed In-teractomeBrowser, a graph-based knowledge browser that comes as a plug-in for Transcriptome-Browser. The first objective of InteractomeBrowser is to provide a user-friendly tool to get new insight into any gene list by providing a context-specific display of putative regulatory and physical interactions. To achieve this, InteractomeBrowser relies on a "cell compartments-based layout" that makes use of a subset of the Gene Ontology to map gene products onto relevant cell compartments. This layout is particularly powerful for visual integration

  17. TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks.

    Science.gov (United States)

    Lepoivre, Cyrille; Bergon, Aurélie; Lopez, Fabrice; Perumal, Narayanan B; Nguyen, Catherine; Imbert, Jean; Puthier, Denis

    2012-01-31

    Deciphering gene regulatory networks by in silico approaches is a crucial step in the study of the molecular perturbations that occur in diseases. The development of regulatory maps is a tedious process requiring the comprehensive integration of various evidences scattered over biological databases. Thus, the research community would greatly benefit from having a unified database storing known and predicted molecular interactions. Furthermore, given the intrinsic complexity of the data, the development of new tools offering integrated and meaningful visualizations of molecular interactions is necessary to help users drawing new hypotheses without being overwhelmed by the density of the subsequent graph. We extend the previously developed TranscriptomeBrowser database with a set of tables containing 1,594,978 human and mouse molecular interactions. The database includes: (i) predicted regulatory interactions (computed by scanning vertebrate alignments with a set of 1,213 position weight matrices), (ii) potential regulatory interactions inferred from systematic analysis of ChIP-seq experiments, (iii) regulatory interactions curated from the literature, (iv) predicted post-transcriptional regulation by micro-RNA, (v) protein kinase-substrate interactions and (vi) physical protein-protein interactions. In order to easily retrieve and efficiently analyze these interactions, we developed In-teractomeBrowser, a graph-based knowledge browser that comes as a plug-in for Transcriptome-Browser. The first objective of InteractomeBrowser is to provide a user-friendly tool to get new insight into any gene list by providing a context-specific display of putative regulatory and physical interactions. To achieve this, InteractomeBrowser relies on a "cell compartments-based layout" that makes use of a subset of the Gene Ontology to map gene products onto relevant cell compartments. This layout is particularly powerful for visual integration of heterogeneous biological information

  18. Phi-square Lexical Competition Database (Phi-Lex): an online tool for quantifying auditory and visual lexical competition.

    Science.gov (United States)

    Strand, Julia F

    2014-03-01

    A widely agreed-upon feature of spoken word recognition is that multiple lexical candidates in memory are simultaneously activated in parallel when a listener hears a word, and that those candidates compete for recognition (Luce, Goldinger, Auer, & Vitevitch, Perception 62:615-625, 2000; Luce & Pisoni, Ear and Hearing 19:1-36, 1998; McClelland & Elman, Cognitive Psychology 18:1-86, 1986). Because the presence of those competitors influences word recognition, much research has sought to quantify the processes of lexical competition. Metrics that quantify lexical competition continuously are more effective predictors of auditory and visual (lipread) spoken word recognition than are the categorical metrics traditionally used (Feld & Sommers, Speech Communication 53:220-228, 2011; Strand & Sommers, Journal of the Acoustical Society of America 130:1663-1672, 2011). A limitation of the continuous metrics is that they are somewhat computationally cumbersome and require access to existing speech databases. This article describes the Phi-square Lexical Competition Database (Phi-Lex): an online, searchable database that provides access to multiple metrics of auditory and visual (lipread) lexical competition for English words, available at www.juliastrand.com/phi-lex .

  19. Custom Visualization without Real Programming

    DEFF Research Database (Denmark)

    Pantazos, Kostas

    Information Visualization tools have simplified visualization development. Some tools help simple users construct standard visualizations; others help programmers develop custom visualizations. This thesis contributes to the field of Information Visualization and End-User Development. The first...... contribution of the thesis is a taxonomy for Information Visualization development tools. Existing taxonomies from the Information Visualization field are helpful, but none of them can properly categorize visualization tools from a user development perspective. The categorization of 20 Information...... Visualization tools proves the applicability of this taxonomy, and the result showed that there are no Dragand- Drop tools that allow end-user developers as well as programmers to create custom visualizations. The second contribution is a new visualization development approach, the Drag...

  20. A visual analogue scale and a Likert scale are simple and responsive tools for assessing dysphagia in eosinophilic oesophagitis.

    Science.gov (United States)

    Reed, C C; Wolf, W A; Cotton, C C; Dellon, E S

    2017-06-01

    While symptom scores have been developed to evaluate dysphagia in eosinophilic oesophagitis (EoE), their complexity may limit clinical use. To evaluate a visual analogue scale (VAS) and a 10-point Likert scale (LS) for assessment of dysphagia severity before and after EoE treatment. We conducted a prospective cohort study enrolling consecutive adults undergoing out-patient endoscopy. Incident cases of EoE were diagnosed per consensus guidelines. At diagnosis and after 8 weeks of treatment, symptoms were measured using the VAS, LS and the Mayo Dysphagia Questionnaire (MDQ). The percentage change in scores before and after treatment were compared overall, in treatment responders (dysphagia severity in EoE in clinical practice. © 2017 John Wiley & Sons Ltd.

  1. A Visual Analogue Scale and a Likert Scale are Simple and Responsive Tools for Assessing Dysphagia in Eosinophilic Esophagitis

    Science.gov (United States)

    Reed, Craig C.; Wolf, W. Asher; Cotton, Cary C.; Dellon, Evan S.

    2017-01-01

    Background While symptom scores have been developed to evaluate dysphagia in eosinophilic oesophagitis (EoE), their complexity may limit clinical use. Aim We aimed to evaluate a visual analogue scale (VAS) and a 10 point Likert scale (LS) for assessment of dysphagia severity before and after EoE treatment. Methods We conducted a prospective cohort study enrolling consecutive adults undergoing outpatient endoscopy. Incident cases of EoE were diagnosed per consensus guidelines. At diagnosis and after 8 weeks of treatment, symptoms were measured using the VAS, LS, and the Mayo Dysphagia Questionnaire (MDQ). The percentage change in scores before and after treatment were compared overall, in treatment responders (dysphagia severity in EoE in clinical practice. PMID:28370355

  2. A simple quality assurance test tool for the visual verification of light and radiation field congruent using electronic portal images device and computed radiography

    Directory of Open Access Journals (Sweden)

    Njeh Christopher F

    2012-03-01

    Full Text Available Abstract Background The radiation field on most megavoltage radiation therapy units are shown by a light field projected through the collimator by a light source mounted inside the collimator. The light field is traditionally used for patient alignment. Hence it is imperative that the light field is congruent with the radiation field. Method A simple quality assurance tool has been designed for rapid and simple test of the light field and radiation field using electronic portal images device (EPID or computed radiography (CR. We tested this QA tool using Varian PortalVision and Elekta iViewGT EPID systems and Kodak CR system. Results Both the single and double exposure techniques were evaluated, with double exposure technique providing a better visualization of the light-radiation field markers. The light and radiation congruency could be detected within 1 mm. This will satisfy the American Association of Physicists in Medicine task group report number 142 recommendation of 2 mm tolerance. Conclusion The QA tool can be used with either an EPID or CR to provide a simple and rapid method to verify light and radiation field congruence.

  3. A simple quality assurance test tool for the visual verification of light and radiation field congruent using electronic portal images device and computed radiography

    International Nuclear Information System (INIS)

    Njeh, Christopher F; Caroprese, Blas; Desai, Pushkar

    2012-01-01

    The radiation field on most megavoltage radiation therapy units are shown by a light field projected through the collimator by a light source mounted inside the collimator. The light field is traditionally used for patient alignment. Hence it is imperative that the light field is congruent with the radiation field. A simple quality assurance tool has been designed for rapid and simple test of the light field and radiation field using electronic portal images device (EPID) or computed radiography (CR). We tested this QA tool using Varian PortalVision and Elekta iViewGT EPID systems and Kodak CR system. Both the single and double exposure techniques were evaluated, with double exposure technique providing a better visualization of the light-radiation field markers. The light and radiation congruency could be detected within 1 mm. This will satisfy the American Association of Physicists in Medicine task group report number 142 recommendation of 2 mm tolerance. The QA tool can be used with either an EPID or CR to provide a simple and rapid method to verify light and radiation field congruence

  4. Visual and visuomotor processing of hands and tools as a case study of cross talk between the dorsal and ventral streams.

    Science.gov (United States)

    Almeida, Jorge; Amaral, Lénia; Garcea, Frank E; Aguiar de Sousa, Diana; Xu, Shan; Mahon, Bradford Z; Martins, Isabel Pavão

    2018-05-24

    A major principle of organization of the visual system is between a dorsal stream that processes visuomotor information and a ventral stream that supports object recognition. Most research has focused on dissociating processing across these two streams. Here we focus on how the two streams interact. We tested neurologically-intact and impaired participants in an object categorization task over two classes of objects that depend on processing within both streams-hands and tools. We measured how unconscious processing of images from one of these categories (e.g., tools) affects the recognition of images from the other category (i.e., hands). Our findings with neurologically-intact participants demonstrated that processing an image of a hand hampers the subsequent processing of an image of a tool, and vice versa. These results were not present in apraxic patients (N = 3). These findings suggest local and global inhibitory processes working in tandem to co-register information across the two streams.

  5. X-Ray Microtomography (μCT as a Useful Tool for Visualization and Interpretation of Shear Strength Test Results

    Directory of Open Access Journals (Sweden)

    Stefaniuk Damian

    2015-02-01

    Full Text Available The paper demonstrates the applicability of X-ray microtomography (ìCT to analysis of the results of shear strength examinations of clayey soils. The method of X-ray three-dimensional imaging offers new possibilities in soil testing. The work focuses on a non-destructive method of evaluation of specimen quality used in shear tests and mechanical behavior of soil. The paper presents the results of examination of 4 selected clayey soils. Specimens prepared for the triaxial test have been scanned using ìCT before and after the triaxial compression tests. The shear strength parameters of the soils have been estimated. Changes in soil structure caused by compression and shear failure have been presented as visualizations of the samples tested. This allowed for improved interpretation and evaluation of soil strength parameters and recognition of pre-existing fissures and the exact mode of failure. Basic geometrical parameters have been determined for selected cross-sections of specimens after failure. The test results indicate the utility of the method applied in soil testing.

  6. Protein Comparability Assessments and Potential Applicability of High Throughput Biophysical Methods and Data Visualization Tools to Compare Physical Stability Profiles

    Directory of Open Access Journals (Sweden)

    Mohammad A. Alsenaidy

    2014-03-01

    Full Text Available In this review, some of the challenges and opportunities encountered during protein comparability assessments are summarized with an emphasis on developing new analytical approaches to better monitor higher-order protein structures. Several case studies are presented using high throughput biophysical methods to collect protein physical stability data as function of temperature, agitation, ionic strength and/or solution pH. These large data sets were then used to construct empirical phase diagrams (EPDs, radar charts, and comparative signature diagrams (CSDs for data visualization and structural comparisons between the different proteins. Protein samples with different sizes, post-translational modifications, and inherent stability are presented: acidic fibroblast growth factor (FGF-1 mutants, different glycoforms of an IgG1 mAb prepared by deglycosylation, as well as comparisons of different formulations of an IgG1 mAb and granulocyte colony stimulating factor (GCSF. Using this approach, differences in structural integrity and conformational stability profiles were detected under stress conditions that could not be resolved by using the same techniques under ambient conditions (i.e., no stress. Thus, an evaluation of conformational stability differences may serve as an effective surrogate to monitor differences in higher-order structure between protein samples. These case studies are discussed in the context of potential utility in protein comparability studies.

  7. Protein comparability assessments and potential applicability of high throughput biophysical methods and data visualization tools to compare physical stability profiles.

    Science.gov (United States)

    Alsenaidy, Mohammad A; Jain, Nishant K; Kim, Jae H; Middaugh, C Russell; Volkin, David B

    2014-01-01

    In this review, some of the challenges and opportunities encountered during protein comparability assessments are summarized with an emphasis on developing new analytical approaches to better monitor higher-order protein structures. Several case studies are presented using high throughput biophysical methods to collect protein physical stability data as function of temperature, agitation, ionic strength and/or solution pH. These large data sets were then used to construct empirical phase diagrams (EPDs), radar charts, and comparative signature diagrams (CSDs) for data visualization and structural comparisons between the different proteins. Protein samples with different sizes, post-translational modifications, and inherent stability are presented: acidic fibroblast growth factor (FGF-1) mutants, different glycoforms of an IgG1 mAb prepared by deglycosylation, as well as comparisons of different formulations of an IgG1 mAb and granulocyte colony stimulating factor (GCSF). Using this approach, differences in structural integrity and conformational stability profiles were detected under stress conditions that could not be resolved by using the same techniques under ambient conditions (i.e., no stress). Thus, an evaluation of conformational stability differences may serve as an effective surrogate to monitor differences in higher-order structure between protein samples. These case studies are discussed in the context of potential utility in protein comparability studies.

  8. Framing scenarios of binational water policy with a tool to visualize, quantify and valuate changes in ecosystem services

    Science.gov (United States)

    Norman, Laura M.; Villarreal, Miguel L.; Niraula, Rewati; Meixner, Thomas; Frisvold, George; Labiosa, William

    2013-01-01

    In the Santa Cruz Watershed, located on the Arizona-Sonora portion of the U.S.-Mexico border, an international wastewater treatment plant treats wastewater from cities on both sides of the border, before discharging it into the river in Arizona. These artificial flows often subsidize important perennial surface water ecosystems in the region. An explicit understanding of the benefits of maintaining instream flow for present and future generations requires the ability to assess and understand the important trade-offs implicit in water-resource management decisions. In this paper, we outline an approach for modeling and visualizing impacts of management decisions in terms of rare terrestrial and aquatic wildlife, vegetation, surface water, groundwater recharge, real-estate values and socio-environmental vulnerable communities. We identify and quantify ecosystem services and model the potential reduction in effluent discharge to the U.S. that is under scrutiny by binational water policy makers and of concern to stakeholders. Results of service provisioning are presented, and implications for policy makers and resource managers are discussed. This paper presents a robust ecosystem services assessment of multiple scenarios of watershed management as a means to discern eco-hydrological responses and consider their potential values for future generations living in the borderlands.

  9. A Web-Based Tool for Automatic Data Collection, Curation, and Visualization of Complex Healthcare Survey Studies including Social Network Analysis

    Directory of Open Access Journals (Sweden)

    José Alberto Benítez

    2017-01-01

    Full Text Available There is a great concern nowadays regarding alcohol consumption and drug abuse, especially in young people. Analyzing the social environment where these adolescents are immersed, as well as a series of measures determining the alcohol abuse risk or personal situation and perception using a number of questionnaires like AUDIT, FAS, KIDSCREEN, and others, it is possible to gain insight into the current situation of a given individual regarding his/her consumption behavior. But this analysis, in order to be achieved, requires the use of tools that can ease the process of questionnaire creation, data gathering, curation and representation, and later analysis and visualization to the user. This research presents the design and construction of a web-based platform able to facilitate each of the mentioned processes by integrating the different phases into an intuitive system with a graphical user interface that hides the complexity underlying each of the questionnaires and techniques used and presenting the results in a flexible and visual way, avoiding any manual handling of data during the process. Advantages of this approach are shown and compared to the previous situation where some of the tasks were accomplished by time consuming and error prone manipulations of data.

  10. A Web-Based Tool for Automatic Data Collection, Curation, and Visualization of Complex Healthcare Survey Studies including Social Network Analysis.

    Science.gov (United States)

    Benítez, José Alberto; Labra, José Emilio; Quiroga, Enedina; Martín, Vicente; García, Isaías; Marqués-Sánchez, Pilar; Benavides, Carmen

    2017-01-01

    There is a great concern nowadays regarding alcohol consumption and drug abuse, especially in young people. Analyzing the social environment where these adolescents are immersed, as well as a series of measures determining the alcohol abuse risk or personal situation and perception using a number of questionnaires like AUDIT, FAS, KIDSCREEN, and others, it is possible to gain insight into the current situation of a given individual regarding his/her consumption behavior. But this analysis, in order to be achieved, requires the use of tools that can ease the process of questionnaire creation, data gathering, curation and representation, and later analysis and visualization to the user. This research presents the design and construction of a web-based platform able to facilitate each of the mentioned processes by integrating the different phases into an intuitive system with a graphical user interface that hides the complexity underlying each of the questionnaires and techniques used and presenting the results in a flexible and visual way, avoiding any manual handling of data during the process. Advantages of this approach are shown and compared to the previous situation where some of the tasks were accomplished by time consuming and error prone manipulations of data.

  11. Biological Principles and Threshold Concepts for Understanding Natural Selection. Implications for Developing Visualizations as a Pedagogic Tool

    Science.gov (United States)

    Tibell, Lena A. E.; Harms, Ute

    2017-11-01

    Modern evolutionary theory is both a central theory and an integrative framework of the life sciences. This is reflected in the common references to evolution in modern science education curricula and contexts. In fact, evolution is a core idea that is supposed to support biology learning by facilitating the organization of relevant knowledge. In addition, evolution can function as a pivotal link between concepts and highlight similarities in the complexity of biological concepts. However, empirical studies in many countries have for decades identified deficiencies in students' scientific understanding of evolution mainly focusing on natural selection. Clearly, there are major obstacles to learning natural selection, and we argue that to overcome them, it is essential to address explicitly the general abstract concepts that underlie the biological processes, e.g., randomness or probability. Hence, we propose a two-dimensional framework for analyzing and structuring teaching of natural selection. The first—purely biological—dimension embraces the three main principles variation, heredity, and selection structured in nine key concepts that form the core idea of natural selection. The second dimension encompasses four so-called thresholds, i.e., general abstract and/or non-perceptual concepts: randomness, probability, spatial scales, and temporal scales. We claim that both of these dimensions must be continuously considered, in tandem, when teaching evolution in order to allow development of a meaningful understanding of the process. Further, we suggest that making the thresholds tangible with the aid of appropriate kinds of visualizations will facilitate grasping of the threshold concepts, and thus, help learners to overcome the difficulties in understanding the central theory of life.

  12. Recall and decay of consent information among parents of infants participating in a randomized controlled clinical trial using an audio-visual tool in The Gambia.

    Science.gov (United States)

    Mboizi, Robert B; Afolabi, Muhammed O; Okoye, Michael; Kampmann, Beate; Roca, Anna; Idoko, Olubukola T

    2017-09-02

    Communicating essential research information to low literacy research participants in Africa is highly challenging, since this population is vulnerable to poor comprehension of consent information. Several supportive materials have been developed to aid participant comprehension in these settings. Within the framework of a pneumococcal vaccine trial in The Gambia, we evaluated the recall and decay of consent information during the trial which used an audio-visual tool called 'Speaking Book', to foster comprehension among parents of participating infants. The Speaking Book was developed in the 2 most widely spoken local languages. Four-hundred and 9 parents of trial infants gave consent to participate in this nested study and were included in the baseline assessment of their knowledge about trial participation. An additional assessment was conducted approximately 90 d later, following completion of the clinical trial protocol. All parents received a Speaking Book at the start of the trial. Trial knowledge was already high at the baseline assessment with no differences related to socio-economic status or education. Knowledge of key trial information was retained at the completion of the study follow-up. The Speaking Book (SB) was well received by the study participants. We hypothesize that the SB may have contributed to the retention of information over the trial follow-up. Further studies evaluating the impact of this innovative tool are thus warranted.

  13. The utility of quantitative electroencephalography and Integrated Visual and Auditory Continuous Performance Test as auxiliary tools for the Attention Deficit Hyperactivity Disorder diagnosis.

    Science.gov (United States)

    Kim, JunWon; Lee, YoungSik; Han, DougHyun; Min, KyungJoon; Kim, DoHyun; Lee, ChangWon

    2015-03-01

    This study investigated the clinical utility of quantitative electroencephalography (QEEG) and the Integrated Visual and Auditory Continuous Performance Test (IVA+CPT) as auxiliary tools for assessing Attention Deficit Hyperactivity Disorder (ADHD). All of 157 subjects were assessed using the Korean version of the Diagnostic Interview Schedule for Children Version IV (DISC-IV). We measured EGG absolute power in 21 channels and conducted IVA+CPT. We analyzed QEEG according to the Hz range: delta (1-4Hz), theta (4-8Hz), slow alpha (8-10Hz), fast alpha (10-13.5Hz), and beta (13.5-30Hz). To remove artifacts, independent component analysis was conducted (ICA), and the tester confirmed the results again. All of the IVA+CPT quotients showed significant differences between the ADHD and control groups. The ADHD group showed significantly increased delta and theta activity compared with the control group. The z-scores of theta were negatively correlated with the scores of IVA+CPT in ADHD combined type, and those of beta were positively correlated. IVA+CPT and QEEG significantly discriminated between ADHD and control groups. The commission error of IVA+CPT showed an accuracy of 82.1%, and the omission error of IVA+CPT showed an accuracy of 78.6%. The IVA+CPT and QEEG are expected to be valuable tools for aiding ADHD diagnosis accurately. Copyright © 2014 International Federation of Clinical Neurophysiology. Published by Elsevier Ireland Ltd. All rights reserved.

  14. Neurophysiological analytics for all! Free open-source software tools for documenting, analyzing, visualizing, and sharing using electronic notebooks.

    Science.gov (United States)

    Rosenberg, David M; Horn, Charles C

    2016-08-01

    Neurophysiology requires an extensive workflow of information analysis routines, which often includes incompatible proprietary software, introducing limitations based on financial costs, transfer of data between platforms, and the ability to share. An ecosystem of free open-source software exists to fill these gaps, including thousands of analysis and plotting packages written in Python and R, which can be implemented in a sharable and reproducible format, such as the Jupyter electronic notebook. This tool chain can largely replace current routines by importing data, producing analyses, and generating publication-quality graphics. An electronic notebook like Jupyter allows these analyses, along with documentation of procedures, to display locally or remotely in an internet browser, which can be saved as an HTML, PDF, or other file format for sharing with team members and the scientific community. The present report illustrates these methods using data from electrophysiological recordings of the musk shrew vagus-a model system to investigate gut-brain communication, for example, in cancer chemotherapy-induced emesis. We show methods for spike sorting (including statistical validation), spike train analysis, and analysis of compound action potentials in notebooks. Raw data and code are available from notebooks in data supplements or from an executable online version, which replicates all analyses without installing software-an implementation of reproducible research. This demonstrates the promise of combining disparate analyses into one platform, along with the ease of sharing this work. In an age of diverse, high-throughput computational workflows, this methodology can increase efficiency, transparency, and the collaborative potential of neurophysiological research. Copyright © 2016 the American Physiological Society.

  15. Visual comparison for information visualization

    KAUST Repository

    Gleicher, M.; Albers, D.; Walker, R.; Jusufi, I.; Hansen, C. D.; Roberts, J. C.

    2011-01-01

    Data analysis often involves the comparison of complex objects. With the ever increasing amounts and complexity of data, the demand for systems to help with these comparisons is also growing. Increasingly, information visualization tools support such comparisons explicitly, beyond simply allowing a viewer to examine each object individually. In this paper, we argue that the design of information visualizations of complex objects can, and should, be studied in general, that is independently of what those objects are. As a first step in developing this general understanding of comparison, we propose a general taxonomy of visual designs for comparison that groups designs into three basic categories, which can be combined. To clarify the taxonomy and validate its completeness, we provide a survey of work in information visualization related to comparison. Although we find a great diversity of systems and approaches, we see that all designs are assembled from the building blocks of juxtaposition, superposition and explicit encodings. This initial exploration shows the power of our model, and suggests future challenges in developing a general understanding of comparative visualization and facilitating the development of more comparative visualization tools. © The Author(s) 2011.

  16. Visual comparison for information visualization

    KAUST Repository

    Gleicher, M.

    2011-09-07

    Data analysis often involves the comparison of complex objects. With the ever increasing amounts and complexity of data, the demand for systems to help with these comparisons is also growing. Increasingly, information visualization tools support such comparisons explicitly, beyond simply allowing a viewer to examine each object individually. In this paper, we argue that the design of information visualizations of complex objects can, and should, be studied in general, that is independently of what those objects are. As a first step in developing this general understanding of comparison, we propose a general taxonomy of visual designs for comparison that groups designs into three basic categories, which can be combined. To clarify the taxonomy and validate its completeness, we provide a survey of work in information visualization related to comparison. Although we find a great diversity of systems and approaches, we see that all designs are assembled from the building blocks of juxtaposition, superposition and explicit encodings. This initial exploration shows the power of our model, and suggests future challenges in developing a general understanding of comparative visualization and facilitating the development of more comparative visualization tools. © The Author(s) 2011.

  17. The LandCarbon Web Application: Advanced Geospatial Data Delivery and Visualization Tools for Communication about Ecosystem Carbon Sequestration and Greenhouse Gas Fluxes

    Science.gov (United States)

    Thomas, N.; Galey, B.; Zhu, Z.; Sleeter, B. M.; Lehmer, E.

    2015-12-01

    The LandCarbon web application (http://landcarbon.org) is a collaboration between the U.S. Geological Survey and U.C. Berkeley's Geospatial Innovation Facility (GIF). The LandCarbon project is a national assessment focused on improved understanding of carbon sequestration and greenhouse gas fluxes in and out of ecosystems related to land use, using scientific capabilities from USGS and other organizations. The national assessment is conducted at a regional scale, covers all 50 states, and incorporates data from remote sensing, land change studies, aquatic and wetland data, hydrological and biogeochemical modeling, and wildfire mapping to estimate baseline and future potential carbon storage and greenhouse gas fluxes. The LandCarbon web application is a geospatial portal that allows for a sophisticated data delivery system as well as a suite of engaging tools that showcase the LandCarbon data using interactive web based maps and charts. The web application was designed to be flexible and accessible to meet the needs of a variety of users. Casual users can explore the input data and results of the assessment for a particular area of interest in an intuitive and interactive map, without the need for specialized software. Users can view and interact with maps, charts, and statistics that summarize the baseline and future potential carbon storage and fluxes for U.S. Level 2 Ecoregions for 3 IPCC emissions scenarios. The application allows users to access the primary data sources and assessment results for viewing and download, and also to learn more about the assessment's objectives, methods, and uncertainties through published reports and documentation. The LandCarbon web application is built on free and open source libraries including Django and D3. The GIF has developed the Django-Spillway package, which facilitates interactive visualization and serialization of complex geospatial raster data. The underlying LandCarbon data is available through an open application

  18. The Use of Visual Decision Support Tools in an Interactive Stakeholder Analysis—Old Ports as New Magnets for Creative Urban Development

    Directory of Open Access Journals (Sweden)

    Peter Nijkamp

    2013-10-01

    Full Text Available Port cities are historically important breeding places of civilization and wealth, and act as attractive high-quality and sustainable places to live and work. They are core places for sustainable development for the entire spatial system as a result of their dynamism, which has in recent years reinforced their position as magnets in a spatial-economic force field. To understand and exploit this potential, the present study presents an analytical framework that links the opportunities provided by traditional port areas/cities to creative, resilient and sustainable urban development. Using evidence-based research, findings are presented from a case study by employing a stakeholder-based model—with interactive visual support tools as novel analysis methods—in a backcasting and forecasting exercise for sustainable development. The empirical study is carried out in and around the NDSM-area, a former dockyard in Amsterdam, the Netherlands. Various future images were used—in an interactive assessment incorporating classes of important stakeholders—as strategic vehicles to identify important policy challenges, and to evaluate options for converting historical-cultural urban port landscapes into sustainable and creative hotspots, starting by reusing, recovering, and regenerating such areas. This approach helps to identify successful policy strategies, and to bring together different forms of expertise in order to resolve conflicts between the interests (or values of a multiplicity of stakeholders, with a view to stimulating economic vitality in combination with meeting social needs and ensuring the conservation of eco-systems in redesigning old port areas. The results indicate that the interactive policy support tools developed for the case study are fit for purpose, and are instrumental in designing sustainable urban port areas.

  19. Visualizing Matrix Multiplication

    Science.gov (United States)

    Daugulis, Peteris; Sondore, Anita

    2018-01-01

    Efficient visualizations of computational algorithms are important tools for students, educators, and researchers. In this article, we point out an innovative visualization technique for matrix multiplication. This method differs from the standard, formal approach by using block matrices to make computations more visual. We find this method a…

  20. Cancer Data and Statistics Tools

    Science.gov (United States)

    ... Educational Campaigns Initiatives Stay Informed Cancer Data and Statistics Tools Recommend on Facebook Tweet Share Compartir Cancer Statistics Tools United States Cancer Statistics: Data Visualizations The ...

  1. Visual explorer facilitator's guide

    CERN Document Server

    Palus, Charles J

    2010-01-01

    Grounded in research and practice, the Visual Explorer™ Facilitator's Guide provides a method for supporting collaborative, creative conversations about complex issues through the power of images. The guide is available as a component in the Visual Explorer Facilitator's Letter-sized Set, Visual Explorer Facilitator's Post card-sized Set, Visual Explorer Playing Card-sized Set, and is also available as a stand-alone title for purchase to assist multiple tool users in an organization.

  2. Data Visualization: Conversion of Data to Animation Files

    National Research Council Canada - National Science Library

    Kimbler, Nate

    2004-01-01

    .... Because visualization tools are vital to understanding complex physical phenomena, these visualization tools attempt to facilitate converting data into animations that can be saved and used in data...

  3. Earth Exploration Toolbook Workshops: Web-Conferencing and Teleconferencing Professional Development Bringing Earth Science Data Analysis and Visualization Tools to K-12 Teachers and Students

    Science.gov (United States)

    McAuliffe, C.; Ledley, T.

    2008-12-01

    our participants reported that they have not tried to locate a teaching resource in DLESE and forty-eight percent report that they have not to locate a teaching resource in NSDL. As part of an EET Data Analysis workshop, teachers actively visit both digital libraries. Virtual workshops using Web conferencing and teleconferencing are an effective and convenient way to deliver professional development that brings teachers from all over the nation together to learn new technology. Teachers report that the step-by-step facilitation along with the ability to ask questions and interact with their peers are some of the most useful aspects of the workshop. In this presentation, we will share successes and challenges of teachers as they implement these Earth science data analysis and visualization tools in their classrooms.

  4. The development and discussion of computerized visual perception assessment tool for Chinese characters structures - Concurrent estimation of the overall ability and the domain ability in item response theory approach.

    Science.gov (United States)

    Wu, Huey-Min; Lin, Chin-Kai; Yang, Yu-Mao; Kuo, Bor-Chen

    2014-11-12

    Visual perception is the fundamental skill required for a child to recognize words, and to read and write. There was no visual perception assessment tool developed for preschool children based on Chinese characters in Taiwan. The purposes were to develop the computerized visual perception assessment tool for Chinese Characters Structures and to explore the psychometrical characteristic of assessment tool. This study adopted purposive sampling. The study evaluated 551 kindergarten-age children (293 boys, 258 girls) ranging from 46 to 81 months of age. The test instrument used in this study consisted of three subtests and 58 items, including tests of basic strokes, single-component characters, and compound characters. Based on the results of model fit analysis, the higher-order item response theory was used to estimate the performance in visual perception, basic strokes, single-component characters, and compound characters simultaneously. Analyses of variance were used to detect significant difference in age groups and gender groups. The difficulty of identifying items in a visual perception test ranged from -2 to 1. The visual perception ability of 4- to 6-year-old children ranged from -1.66 to 2.19. Gender did not have significant effects on performance. However, there were significant differences among the different age groups. The performance of 6-year-olds was better than that of 5-year-olds, which was better than that of 4-year-olds. This study obtained detailed diagnostic scores by using a higher-order item response theory model to understand the visual perception of basic strokes, single-component characters, and compound characters. Further statistical analysis showed that, for basic strokes and compound characters, girls performed better than did boys; there also were differences within each age group. For single-component characters, there was no difference in performance between boys and girls. However, again the performance of 6-year-olds was better than

  5. Which energy mix for the UK (United Kingdom)? An evolutive descriptive mapping with the integrated GAIA (graphical analysis for interactive aid)–AHP (analytic hierarchy process) visualization tool

    International Nuclear Information System (INIS)

    Ishizaka, Alessio; Siraj, Sajid; Nemery, Philippe

    2016-01-01

    Although Multi-Criteria Decision Making methods have been extensively used in energy planning, their descriptive use has been rarely considered. In this paper, we add an evolutionary description phase as an extension to the AHP (analytic hierarchy process) method that helps policy makers to gain insights into their decision problems. The proposed extension has been implemented in an open-source software that allows the users to visualize the difference of opinions within a decision process, and also the evolution of preferences over time. The method was tested in a two-phase experiment to understand the evolution of opinions on energy sources. Participants were asked to provide their preferences for different energy sources for the next twenty years for the United Kingdom. They were first asked to compare the options intuitively without using any structured approach, and then were given three months to compare the same set of options after collecting detailed information on the technical, economic, environmental and social impacts created by each of the selected energy sources. The proposed visualization method allow us to quickly discover the preference directions, and also the changes in their preferences from first to second phase. The proposed tool can help policy makers in better understanding of the energy planning problems that will lead us towards better planning and decisions in the energy sector. - Highlights: • We introduce a descriptive visual analysis tool for the analytic hierarchy process. • The method has been implemented as an open-source preference elicitation tool. • We analyse user preferences in the energy sector using this method. • The tool also provides a way to visualize temporal preferences changes. • The main negative temporal shift in the ranking was found for the nuclear energy.

  6. The hemodynamic "target": a visual tool of goal-directed therapy for septic patients Alvo hemodinâmico: uma ferramenta visual de terapia "goal-directed" para pacientes sépticos

    Directory of Open Access Journals (Sweden)

    Fabrice Vallée

    2007-01-01

    Full Text Available OBJECTIVE: To improve understanding of the hemodynamic status of patients with sepsis by nursing teams through the attainment of hemodynamic parameters using a pentaxial "target" diagram as a clinical tool. Parameters include cardiac index (CI, arterial oxygen saturation (SaO2, mean arterial pressure (MAP, arterial blood lactate, and central venous oxygen saturation (ScvO2. METHODS: Design: Prospective descriptive study. Setting: The intensive care unit of a university hospital. Patients: During a 6-month period, 38 intubated septic shock patients were included in the study. Survivors and nonsurvivors were compared. Interventions: MAP, CI, SaO2, ScvO2 and lactate were measured at 0, 6, 12, 24, 36, and 48 h. Measurements were recorded on the target diagram along with the norepinephrine infusion rate and the hemoglobin (Hb level. The number of lactate and ScvO2 measurements achieved during the target period were compared to a 6-month retrospective control period just before starting the protocol. We assessed the nurse knowledge status prior to the introduction of target diagram. We then performed a post-test after implementing the new recording technique. MEASUREMENTS AND RESULTS: The nursing team expressed a positive attitude toward the target concept. The mean number of lactate and ScvO2 measurements performed for each patient during the control period was significantly lower than during the target period, and those values were rarely used as goal values before the introduction of the target diagram. At 24 hours, 46% of the survivors had achieved all the goal parameter values of the target diagram, compared to only 10% of nonsurvivors (P = .01. CONCLUSION: The target diagram is a visual multiparametric tool involving all the medical and nursing team that helps achieve goal-directed therapy for septic patients. The number of goal values reached at each time point during the first 48 hours was closely linked to mortality.OBJETIVO: Melhorar a

  7. Learning Visualizations by Analogy: Promoting Visual Literacy through Visualization Morphing.

    Science.gov (United States)

    Ruchikachorn, Puripant; Mueller, Klaus

    2015-09-01

    We propose the concept of teaching (and learning) unfamiliar visualizations by analogy, that is, demonstrating an unfamiliar visualization method by linking it to another more familiar one, where the in-betweens are designed to bridge the gap of these two visualizations and explain the difference in a gradual manner. As opposed to a textual description, our morphing explains an unfamiliar visualization through purely visual means. We demonstrate our idea by ways of four visualization pair examples: data table and parallel coordinates, scatterplot matrix and hyperbox, linear chart and spiral chart, and hierarchical pie chart and treemap. The analogy is commutative i.e. any member of the pair can be the unfamiliar visualization. A series of studies showed that this new paradigm can be an effective teaching tool. The participants could understand the unfamiliar visualization methods in all of the four pairs either fully or at least significantly better after they observed or interacted with the transitions from the familiar counterpart. The four examples suggest how helpful visualization pairings be identified and they will hopefully inspire other visualization morphings and associated transition strategies to be identified.

  8. Constructing visual representations

    DEFF Research Database (Denmark)

    Huron, Samuel; Jansen, Yvonne; Carpendale, Sheelagh

    2014-01-01

    tangible building blocks. We learned that all participants, most of whom had little experience in visualization authoring, were readily able to create and talk about their own visualizations. Based on our observations, we discuss participants’ actions during the development of their visual representations......The accessibility of infovis authoring tools to a wide audience has been identified as a major research challenge. A key task in the authoring process is the development of visual mappings. While the infovis community has long been deeply interested in finding effective visual mappings......, comparatively little attention has been placed on how people construct visual mappings. In this paper, we present the results of a study designed to shed light on how people transform data into visual representations. We asked people to create, update and explain their own information visualizations using only...

  9. Gazing at places we have never been: landscape, heritage and identity: a comment on Jörg Rekittke and Philip Paar: 'Past pictures: landscape visualization with digital tools'

    NARCIS (Netherlands)

    van der Laarse, R.; Bloemers, T.; Kars, H.; van der Valk, A.; Wijnen, M.

    2010-01-01

    Acknowledging the paradigmatic impact of new digital techniques, this contribution questions the depoliticized conceptualization of landscape in modern landscape visualizations from a theoretical and historical perspective. Long after the earlier periods of formal gardening and landscaping, the

  10. Improving Visual Communication.

    Science.gov (United States)

    Singh, Gary

    2018-01-01

    A tool that creates realtime interactive color maps for scientific visualization helped enhance the dynamics of a major research project for the Climate, Ocean, and Sea Ice Modeling team at Los Alamos National Laboratory.

  11. 10 Data Visualization Tips

    International Development Research Centre (IDRC) Digital Library (Canada)

    Office 2004 Test Drive User

    Data visualizations are an effective tool to communicate ... The value axis should always start at ... more than five slices, and their total value ... They are effective with large datasets and to highlight ... word clouds can add emphasis to specific.

  12. Visual Artist or Visual Designer? Visual Communication Design Education

    OpenAIRE

    Arsoy, Aysu

    2010-01-01

    ABSTRACT: Design tools and contents have been digitalized, forming the contemporary fields of the visual arts and design. Corporate culture demands techno-social experts who understand the arts, design, culture and society, while also having a high level of technological proficiency. New departments have opened offering alternatives in art and design education such as Visual Communication Design (VCD) and are dedicated to educating students in the practical aspect of using digital technologi...

  13. Data visualization a guide to visual storytelling for libraries

    CERN Document Server

    2016-01-01

    Data Visualization: A Guide to Visual Storytelling for Libraries is a practical guide to the skills and tools needed to create beautiful and meaningful visual stories through data visualization. Learn how to sift through complex datasets to better understand a variety of metrics, such as trends in user behavior and electronic resource usage, return on investment (ROI) and impact metrics, and learning and reference analytics. Sections include: .Identifying and interpreting datasets for visualization .Tools and technologies for creating meaningful visualizations .Case studies in data visualization and dashboards Understanding and communicating trends from your organization s data is essential. Whether you are looking to make more informed decisions by visualizing organizational data, or to tell the story of your library s impact on your community, this book will give you the tools to make it happen."

  14. Mathematica data visualization

    CERN Document Server

    Saquib, Nazmus

    2014-01-01

    If you are planning to create data analysis and visualization tools in the context of science, engineering, economics, or social science, then this book is for you. With this book, you will become a visualization expert, in a short time, using Mathematica.

  15. Visualizing the Heliosphere

    Science.gov (United States)

    Bridgman, William T.; Shirah, Greg W.; Mitchell, Horace G.

    2008-01-01

    Today, scientific data and models can combine with modern animation tools to produce compelling visualizations to inform and educate. The Scientific Visualization Studio at Goddard Space Flight Center merges these techniques from the very different worlds of entertainment and science to enable scientists and the general public to 'see the unseeable' in new ways.

  16. Could a Multimodal Dictionary Serve as a Learning Tool? An Examination of the Impact of Technologically Enhanced Visual Glosses on L2 Text Comprehension

    Science.gov (United States)

    Sato, Takeshi

    2016-01-01

    This study examines the efficacy of a multimodal online bilingual dictionary based on cognitive linguistics in order to explore the advantages and limitations of explicit multimodal L2 vocabulary learning. Previous studies have examined the efficacy of the verbal and visual representation of words while reading L2 texts, concluding that it…

  17. Techniques of remote sensing and GIS as tools for visualizing impact of climate change-induced flood in the southern African region.

    Science.gov (United States)

    This study employs remote sensing and Geographical Information Systems (GIS) data to visualize the impact of climate change caused by flooding in the Southern African region in order to assist decision makers’ plans for future occurrences. In pursuit of this objective, this study uses Digital Elevat...

  18. Identification and visualization of dominant patterns and anomalies in remotely sensed vegetation phenology using a parallel tool for principal components analysis

    Science.gov (United States)

    Richard Tran Mills; Jitendra Kumar; Forrest M. Hoffman; William W. Hargrove; Joseph P. Spruce; Steven P. Norman

    2013-01-01

    We investigated the use of principal components analysis (PCA) to visualize dominant patterns and identify anomalies in a multi-year land surface phenology data set (231 m × 231 m normalized difference vegetation index (NDVI) values derived from the Moderate Resolution Imaging Spectroradiometer (MODIS)) used for detecting threats to forest health in the conterminous...

  19. Visual exploration of images

    Science.gov (United States)

    Suaste-Gomez, Ernesto; Leybon, Jaime I.; Rodriguez, D.

    1998-07-01

    Visual scanpath has been an important work applied in neuro- ophthalmic and psychological studies. This is because it has been working like a tool to validate some pathologies such as visual perception in color or black/white images; color blindness; etc. On the other hand, this tool has reached a big field of applications such as marketing. The scanpath over a specific picture, shows the observer interest in color, shapes, letter size, etc.; even tough the picture be among a group of images, this tool has demonstrated to be helpful to catch people interest over a specific advertisement.

  20. Protocol for a systematic review of the use of narrative storytelling and visual-arts-based approaches as knowledge translation tools in healthcare

    Science.gov (United States)

    2013-01-01

    Background The arts are powerful, accessible forms of communication that have the potential to impart knowledge by attracting interest and developing meaningful connections. Knowledge translation aims to reduce the ‘evidence-practice’ gap by developing, implementing and evaluating strategies designed to enhance awareness and promote behavior change congruent with research evidence. Increasingly, innovative approaches such as narrative storytelling and other arts-based interventions are being investigated to bridge the growing gap between practice and research. This study is the first to systematically identify and synthesize current research on narrative storytelling and visual art to translate and disseminate health research. Methods A health research librarian will develop and implement search strategies designed to identify relevant evidence. Studies will be included if they are primary research employing narrative storytelling and/or visual art as a knowledge translation strategy in healthcare. Two reviewers will independently perform study selection, quality assessment, and data extraction using standard forms. Disagreements will be resolved through discussion or third party adjudication. Data will be grouped and analyzed by research design, type of knowledge translation strategy (that is, a narrative or visual-arts-based approach), and target audience. An overall synthesis across all studies will be conducted. Discussion The findings from this research project will describe the ‘state of the science’ regarding the use of narrative storytelling and visual art as knowledge translation strategies. This systematic review will provide critical information for: (1) researchers conducting knowledge translation intervention studies; (2) nursing, medicine, and allied healthcare professionals; (3) healthcare consumers, including patients and families; and (4) decision makers and knowledge users who are charged to increase use of the latest research in

  1. Protocol for a systematic review of the use of narrative storytelling and visual-arts-based approaches as knowledge translation tools in healthcare.

    Science.gov (United States)

    Scott, Shannon D; Brett-MacLean, Pamela; Archibald, Mandy; Hartling, Lisa

    2013-03-20

    The arts are powerful, accessible forms of communication that have the potential to impart knowledge by attracting interest and developing meaningful connections. Knowledge translation aims to reduce the 'evidence-practice' gap by developing, implementing and evaluating strategies designed to enhance awareness and promote behavior change congruent with research evidence. Increasingly, innovative approaches such as narrative storytelling and other arts-based interventions are being investigated to bridge the growing gap between practice and research. This study is the first to systematically identify and synthesize current research on narrative storytelling and visual art to translate and disseminate health research. A health research librarian will develop and implement search strategies designed to identify relevant evidence. Studies will be included if they are primary research employing narrative storytelling and/or visual art as a knowledge translation strategy in healthcare. Two reviewers will independently perform study selection, quality assessment, and data extraction using standard forms. Disagreements will be resolved through discussion or third party adjudication. Data will be grouped and analyzed by research design, type of knowledge translation strategy (that is, a narrative or visual-arts-based approach), and target audience. An overall synthesis across all studies will be conducted. The findings from this research project will describe the 'state of the science' regarding the use of narrative storytelling and visual art as knowledge translation strategies. This systematic review will provide critical information for: (1) researchers conducting knowledge translation intervention studies; (2) nursing, medicine, and allied healthcare professionals; (3) healthcare consumers, including patients and families; and (4) decision makers and knowledge users who are charged to increase use of the latest research in healthcare settings.

  2. Web-based tool for visualization of electric field distribution in deep-seated body structures and planning of electroporation-based treatments.

    Science.gov (United States)

    Marčan, Marija; Pavliha, Denis; Kos, Bor; Forjanič, Tadeja; Miklavčič, Damijan

    2015-01-01

    Treatments based on electroporation are a new and promising approach to treating tumors, especially non-resectable ones. The success of the treatment is, however, heavily dependent on coverage of the entire tumor volume with a sufficiently high electric field. Ensuring complete coverage in the case of deep-seated tumors is not trivial and can in best way be ensured by patient-specific treatment planning. The basis of the treatment planning process consists of two complex tasks: medical image segmentation, and numerical modeling and optimization. In addition to previously developed segmentation algorithms for several tissues (human liver, hepatic vessels, bone tissue and canine brain) and the algorithms for numerical modeling and optimization of treatment parameters, we developed a web-based tool to facilitate the translation of the algorithms and their application in the clinic. The developed web-based tool automatically builds a 3D model of the target tissue from the medical images uploaded by the user and then uses this 3D model to optimize treatment parameters. The tool enables the user to validate the results of the automatic segmentation and make corrections if necessary before delivering the final treatment plan. Evaluation of the tool was performed by five independent experts from four different institutions. During the evaluation, we gathered data concerning user experience and measured performance times for different components of the tool. Both user reports and performance times show significant reduction in treatment-planning complexity and time-consumption from 1-2 days to a few hours. The presented web-based tool is intended to facilitate the treatment planning process and reduce the time needed for it. It is crucial for facilitating expansion of electroporation-based treatments in the clinic and ensuring reliable treatment for the patients. The additional value of the tool is the possibility of easy upgrade and integration of modules with new

  3. SMARTPHONE-BASED DILATED FUNDUS PHOTOGRAPHY AND NEAR VISUAL ACUITY TESTING AS INEXPENSIVE SCREENING TOOLS TO DETECT REFERRAL WARRANTED DIABETIC EYE DISEASE.

    Science.gov (United States)

    Toy, Brian C; Myung, David J; He, Lingmin; Pan, Carolyn K; Chang, Robert T; Polkinhorne, Alison; Merrell, Douglas; Foster, Doug; Blumenkranz, Mark S

    2016-05-01

    To compare clinical assessment of diabetic eye disease by standard dilated examination with data gathered using a smartphone-based store-and-forward teleophthalmology platform. 100 eyes of 50 adult patients with diabetes from a health care safety-net ophthalmology clinic. All patients underwent comprehensive ophthalmic examination. Concurrently, a smartphone was used to estimate near visual acuity and capture anterior and dilated posterior segment photographs, which underwent masked, standardized review. Quantitative comparison of clinic and smartphone-based data using descriptive, kappa, Bland-Altman, and receiver operating characteristic analyses was performed. Smartphone visual acuity was successfully measured in all eyes. Anterior and posterior segment photography was of sufficient quality to grade in 96 and 98 eyes, respectively. There was good correlation between clinical Snellen and smartphone visual acuity measurements (rho = 0.91). Smartphone-acquired fundus photographs demonstrated 91% sensitivity and 99% specificity to detect moderate nonproliferative and worse diabetic retinopathy, with good agreement between clinic and photograph grades (kappa = 0.91 ± 0.1, P smartphone-based telemedicine system that demonstrated sensitivity and specificity to detect referral-warranted diabetic eye disease as a proof-of-concept. Additional studies are warranted to evaluate this approach to expanding screening for diabetic retinopathy.

  4. Linking Science and Management in an Interactive Geospatial, Mutli-Criterion, Structured Decision Support Framework: Use Case Studies of the "Future Forests Geo-visualization and Decision Support Tool

    Science.gov (United States)

    Pontius, J.; Duncan, J.

    2017-12-01

    Land managers are often faced with balancing management activities to accomplish a diversity of management objectives, in systems faced with many stress agents. Advances in ecosystem modeling provide a rich source of information to inform management. Coupled with advances in decision support techniques and computing capabilities, interactive tools are now accessible for a broad audience of stakeholders. Here we present one such tool designed to capture information on how climate change may impact forested ecosystems, and how that impact varies spatially across the landscape. This tool integrates empirical models of current and future forest structure and function in a structured decision framework that allows users to customize weights for multiple management objectives and visualize suitability outcomes across the landscape. Combined with climate projections, the resulting products allow stakeholders to compare the relative success of various management objectives on a pixel by pixel basis and identify locations where management outcomes are most likely to be met. Here we demonstrate this approach with the integration of several of the preliminary models developed to map species distributions, sugar maple health, forest fragmentation risk and hemlock vulnerability to hemlock woolly adelgid under current and future climate scenarios. We compare three use case studies with objective weightings designed to: 1) Identify key parcels for sugarbush conservation and management, 2) Target state lands that may serve as hemlock refugia from hemlock woolly adelgid induced mortality, and 3) Examine how climate change may alter the success of managing for both sugarbush and hemlock across privately owned lands. This tool highlights the value of flexible models that can be easily run with customized weightings in a dynamic, integrated assessment that allows users to hone in on their potentially complex management objectives, and to visualize and prioritize locations across the

  5. EpiHosp: A web-based visualization tool enabling the exploratory analysis of complications of implantable medical devices from a nationwide hospital database.

    Science.gov (United States)

    Ficheur, Grégoire; Ferreira Careira, Lionel; Beuscart, Régis; Chazard, Emmanuel

    2015-01-01

    Administrative data can be used for the surveillance of the outcomes of implantable medical devices (IMDs). The objective of this work is to build a web-based tool allowing for an exploratory analysis of time-dependent events that may occur after the implementation of an IMD. This tool should enable a pharmacoepidemiologist to explore on the fly the relationship between a given IMD and a potential outcome. This tool mine the French nationwide database of inpatient stays from 2008 to 2013. The data are preprocessed in order to optimize the queries. A web tool is developed in PHP, MySQL and Javascript. The user selects one or a group of IMD from a tree, and can filter the results using years and hospital names. Four result pages describe the selected inpatient stays: (1) temporal and demographic description, (2) a description of the geographical location of the hospital, (3) a description of the geographical place of residence of the patient and (4) a table showing the rehospitalization reasons by decreasing order of frequency. Then, the user can select one readmission reason and display dynamically the probability of readmission by mean of a Kaplan-Meier curve with confidence intervals. This tool enables to dynamically monitor the occurrence of time-dependent complications of IMD.

  6. 3rd Annual Earth System Grid Federation and 3rd Annual Earth System Grid Federation and Ultrascale Visualization Climate Data Analysis Tools Face-to-Face Meeting Report December 2013

    Energy Technology Data Exchange (ETDEWEB)

    Williams, Dean N. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2014-02-21

    The climate and weather data science community gathered December 3–5, 2013, at Lawrence Livermore National Laboratory, in Livermore, California, for the third annual Earth System Grid Federation (ESGF) and Ultra-scale Visualization Climate Data Analysis Tools (UV-CDAT) Face-to-Face (F2F) Meeting, which was hosted by the Department of Energy, National Aeronautics and Space Administration, National Oceanic and Atmospheric Administration, the European Infrastructure for the European Network of Earth System Modelling, and the Australian Department of Education. Both ESGF and UV-CDAT are global collaborations designed to develop a new generation of open-source software infrastructure that provides distributed access and analysis to observed and simulated data from the climate and weather communities. The tools and infrastructure developed under these international multi-agency collaborations are critical to understanding extreme weather conditions and long-term climate change, while the F2F meetings help to build a stronger climate and weather data science community and stronger federated software infrastructure. The 2013 F2F meeting determined requirements for existing and impending national and international community projects; enhancements needed for data distribution, analysis, and visualization infrastructure; and standards and resources needed for better collaborations.

  7. Recovery Action Mapping Tool

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The Recovery Action Mapping Tool is a web map that allows users to visually interact with and query actions that were developed to recover species listed under the...

  8. mIMT-visHTS: A novel method for multiplexing isobaric mass tagged datasets with an accompanying visualization high throughput screening tool for protein profiling.

    Science.gov (United States)

    Ricchiuto, Piero; Iwata, Hiroshi; Yabusaki, Katsumi; Yamada, Iwao; Pieper, Brett; Sharma, Amitabh; Aikawa, Masanori; Singh, Sasha A

    2015-10-14

    Isobaric mass tagging (IMT) methods enable the analysis of thousands of proteins simultaneously. We used tandem mass tagging reagents (TMT™) to monitor the relative changes in the proteome of the mouse macrophage cell line RAW264.7 at the same six time points after no stimulation (baseline phenotype), stimulation with interferon gamma (pro-inflammatory phenotype) or stimulation with interleukin-4 (anti-inflammatory phenotype). The combined TMT datasets yielded nearly 12,000 protein profiles for comparison. To facilitate this large analysis, we developed a novel method that combines or multiplexes the separate IMT (mIMT) datasets into a single super dataset for subsequent model-based clustering and co-regulation analysis. Specially designed visual High Throughput Screening (visHTS) software screened co-regulated proteins. visHTS generates an interactive and visually intuitive color-coded bullseye plot that enables users to browse the cluster outputs and identify co-regulated proteins. Copyright © 2015 Elsevier B.V. All rights reserved.

  9. Customizable Time-Oriented Visualizations

    DEFF Research Database (Denmark)

    Kuhail, Mohammad Amin; Pantazos, Kostas; Lauesen, Søren

    2012-01-01

    Most commercial visualization tools support an easy and quick creation of conventional time-oriented visualizations such as line charts, but customization is limited. In contrast, some academic visualization tools and programming languages support the creation of some customizable time......-oriented visualizations but it is time consuming and hard. To combine efficiency, the effort required to develop a visualization, and customizability, the ability to tailor a visualization, we developed time-oriented building blocks that address the specifics of time (e.g. linear vs. cyclic or point-based vs. interval......-based) and consist of inner customizable parts (e.g. ticks). A combination of the time-oriented and other primitive graphical building blocks allowed the creation of several customizable advanced time-oriented visualizations. The appearance and behavior of the blocks are specified using spreadsheet-like formulas. We...

  10. The Application of an Online Data Visualization Tool, Ptplot, in the World Data Center (WDC for Solar-Terrestrial Science (STS in IPS Radio and Space Services, Australia

    Directory of Open Access Journals (Sweden)

    K Wang

    2013-02-01

    Full Text Available Ptplot is a set of two dimensional signal plotters components written in Java with multiple properties, such as being embeddable in applets or applications, utilizing automatic or manual tick marks, logarithmic axes, infinite zooming, and much more. The World Data Centre of IPS applies Ptplot as a multiple function online data plot tool by converting various text format data files into Ptplot recognizable XML files with the AWK language. At present, Ptplot has allowed eight archived solar-terrestrial science data sets to be easily plotted, viewed, and downloaded from the IPS web site.

  11. Scientific visualization and radiology

    International Nuclear Information System (INIS)

    Lawrance, D.P.; Hoyer, C.E.; Wrestler, F.A.; Kuhn, M.J.; Moore, W.D.; Anderson, D.R.

    1989-01-01

    Scientific visualization is the visual presentation of numerical data. The National Center for Supercomputing Applications (NCSA) has developed methods for visualizing computerbased simulations of digital imaging data. The applicability of these various tools for unique and potentially medical beneficial display of MR images is investigated. Raw data are obtained from MR images of the brain, neck, spine, and brachial plexus obtained on a 1.5-T imager with multiple pulse sequences. A supercomputer and other mainframe resources run a variety of graphic and imaging programs using this data. An interdisciplinary team of imaging scientists, computer graphic programmers, an physicians works together to achieve useful information

  12. Scientific visualization of gravitational lenses

    International Nuclear Information System (INIS)

    Magallon, M.

    1999-01-01

    Concepts related to gravitational lenses are discussed and applied to develop an interactive visualization tool that allow us to investigate them. Optimization strategies were performed to elaborate the tool. Some results obtained from the application of the tool are shown [es

  13. Polymorphic male color morphs visualized with steroids in monomorphic females: a tool for designing analysis of sex-limited trait inheritance.

    Science.gov (United States)

    Olsson, Mats; Healey, Mo; Wilson, Mark; Tobler, Michael

    2012-02-15

    In diploid animals, males and females share most of the genome (except sex-specific elements, such as sex chromosome genes), yet despite sharing the underlying genes that hard-wire traits, males and females may differ in their phenotypes when traits are controlled by proximate mechanisms, such as hormones. In color polymorphic species where coloration is only expressed in one sex, the design of studies of the inheritance of color and coevolved morph-specific traits (e.g. territorial vs sneaker strategies, skewed energetic investment in territorial defense vs sperm production, etc.) is compromised as the expression of morph-coding genes is only visualized in one sex. Here, we circumvented this problem by first characterizing oxidative stress traits in both sexes and then using testosterone implants in females to expose their otherwise 'silent' coloration. Males of our model species are highly territorial and exhibit morph-specific levels of aggression, whereas females are non-territorial and display very low levels of aggression. Interestingly, reactive oxygen species levels were found to be morph specific regardless of sex, despite considerable differences in lifestyle. Males and females did differ remarkably, however, in superoxide levels depending on whether they sported a colored throat bib or not, a trait also used in male sexual signaling. Females with throat bibs had significantly lower levels of superoxide than females without a bib, which was not the case for males.

  14. Visual art and visual perception

    NARCIS (Netherlands)

    Koenderink, Jan J.

    2015-01-01

    Visual art and visual perception ‘Visual art’ has become a minor cul-de-sac orthogonal to THE ART of the museum directors and billionaire collectors. THE ART is conceptual, instead of visual. Among its cherished items are the tins of artist’s shit (Piero Manzoni, 1961, Merda d’Artista) “worth their

  15. An Interactive, Mobile-Based Tool for Personal Social Network Data Collection and Visualization Among a Geographically Isolated and Socioeconomically Disadvantaged Population: Early-Stage Feasibility Study With Qualitative User Feedback.

    Science.gov (United States)

    Eddens, Katherine S; Fagan, Jesse M; Collins, Tom

    2017-06-22

    Personal social networks have a profound impact on our health, yet collecting personal network data for use in health communication, behavior change, or translation and dissemination interventions has proved challenging. Recent advances in social network data collection software have reduced the burden of network studies on researchers and respondents alike, yet little testing has occurred to discover whether these methods are: (1) acceptable to a variety of target populations, including those who may have limited experience with technology or limited literacy; and (2) practical in the field, specifically in areas that are geographically and technologically disconnected, such as rural Appalachian Kentucky. We explored the early-stage feasibility (Acceptability, Demand, Implementation, and Practicality) of using innovative, interactive, tablet-based network data collection and visualization software (OpenEddi) in field collection of personal network data in Appalachian Kentucky. A total of 168 rural Appalachian women who had previously participated in a study on the use of a self-collected vaginal swab (SCVS) for human papillomavirus testing were recruited by community-based nurse interviewers between September 2013 and August 2014. Participants completed egocentric network surveys via OpenEddi, which captured social and communication network influences on participation in, and recruitment to, the SCVS study. After study completion, we conducted a qualitative group interview with four nurse interviewers and two participants in the network study. Using this qualitative data, and quantitative data from the network study, we applied guidelines from Bowen et al to assess feasibility in four areas of early-stage development of OpenEddi: Acceptability, Demand, Implementation, and Practicality. Basic descriptive network statistics (size, edges, density) were analyzed using RStudio. OpenEddi was perceived as fun, novel, and superior to other data collection methods or tools

  16. 3D Visualization for Planetary Missions

    Science.gov (United States)

    DeWolfe, A. W.; Larsen, K.; Brain, D.

    2018-04-01

    We have developed visualization tools for viewing planetary orbiters and science data in 3D for both Earth and Mars, using the Cesium Javascript library, allowing viewers to visualize the position and orientation of spacecraft and science data.

  17. IIS--Integrated Interactome System: a web-based platform for the annotation, analysis and visualization of protein-metabolite-gene-drug interactions by integrating a variety of data sources and tools.

    Science.gov (United States)

    Carazzolle, Marcelo Falsarella; de Carvalho, Lucas Miguel; Slepicka, Hugo Henrique; Vidal, Ramon Oliveira; Pereira, Gonçalo Amarante Guimarães; Kobarg, Jörg; Meirelles, Gabriela Vaz

    2014-01-01

    High-throughput screening of physical, genetic and chemical-genetic interactions brings important perspectives in the Systems Biology field, as the analysis of these interactions provides new insights into protein/gene function, cellular metabolic variations and the validation of therapeutic targets and drug design. However, such analysis depends on a pipeline connecting different tools that can automatically integrate data from diverse sources and result in a more comprehensive dataset that can be properly interpreted. We describe here the Integrated Interactome System (IIS), an integrative platform with a web-based interface for the annotation, analysis and visualization of the interaction profiles of proteins/genes, metabolites and drugs of interest. IIS works in four connected modules: (i) Submission module, which receives raw data derived from Sanger sequencing (e.g. two-hybrid system); (ii) Search module, which enables the user to search for the processed reads to be assembled into contigs/singlets, or for lists of proteins/genes, metabolites and drugs of interest, and add them to the project; (iii) Annotation module, which assigns annotations from several databases for the contigs/singlets or lists of proteins/genes, generating tables with automatic annotation that can be manually curated; and (iv) Interactome module, which maps the contigs/singlets or the uploaded lists to entries in our integrated database, building networks that gather novel identified interactions, protein and metabolite expression/concentration levels, subcellular localization and computed topological metrics, GO biological processes and KEGG pathways enrichment. This module generates a XGMML file that can be imported into Cytoscape or be visualized directly on the web. We have developed IIS by the integration of diverse databases following the need of appropriate tools for a systematic analysis of physical, genetic and chemical-genetic interactions. IIS was validated with yeast two

  18. End-User Development of Information Visualization

    DEFF Research Database (Denmark)

    Pantazos, Kostas; Lauesen, Søren; Vatrapu, Ravi

    2013-01-01

    such as data manipulation, but no formal training in programming. 18 visualization tools were surveyed from an enduser developer perspective. The results of this survey study show that end-user developers need better tools to create and modify custom visualizations. A closer collaboration between End......This paper investigates End-User Development of Information Visualization. More specifically, we investigated how existing visualization tools allow end-user developers to construct visualizations. End-user developers have some developing or scripting skills to perform relatively advanced tasks......-User Development and Information Visualization researchers could contribute towards the development of better tools to support custom visualizations. In addition, as empirical evaluations of these tools are lacking both research communities should focus more on this aspect. The study serves as a starting point...

  19. Optical sensor nanoparticles in artificial sediments--a new tool to visualize O2 dynamics around the rhizome and roots of seagrasses.

    Science.gov (United States)

    Koren, Klaus; Brodersen, Kasper E; Jakobsen, Sofie L; Kühl, Michael

    2015-02-17

    Seagrass communities provide important ecosystems services in coastal environments but are threatened by anthropogenic impacts. Especially the ability of seagrasses to aerate their below-ground tissue and immediate rhizosphere to prevent sulfide intrusion from the surrounding sediment is critical for their resilience to environmental disturbance. There is a need for chemical techniques that can map the O2 distribution and dynamics in the seagrass rhizosphere upon environmental changes and thereby identify critical stress thresholds of e.g. water flow, turbidity, and O2 conditions in the water phase. In a novel experimental approach, we incorporated optical O2 sensor nanoparticles into a transparent artificial sediment matrix consisting of pH-buffered deoxygenated sulfidic agar. Seagrass growth and photosynthesis was not inhibited in the experimental setup when the below-ground biomass was immobilized in the artificial sulfidic sediment with nanoparticles and showed root growth rates (∼ 5 mm day(-1)) and photosynthetic quantum yields (∼ 0.7) comparable to healthy seagrasses in their natural habitat. We mapped the real-time below ground O2 distribution and dynamics in the whole seagrass rhizosphere during experimental manipulation of light exposure and O2 content in the overlaying water. Those manipulations showed that oxygen release from the belowground tissue is much higher in light as compared to darkness and that water column hypoxia leads to diminished oxygen levels around the rhizome/roots. Oxygen release was visualized and analyzed on a whole rhizosphere level, which is a substantial improvement to existing methods relying on point measurements with O2 microsensors or partial mapping of the rhizosphere in close contact with a planar O2 optode. The combined use of optical nanoparticle-based sensors with artificial sediments enables imaging of chemical microenvironments in the rhizosphere of aquatic plants at high spatiotemporal resolution with a relatively

  20. Principles of Information Visualization for Business Research

    OpenAIRE

    Ioan I. ANDONE

    2008-01-01

    In the era of data-centric-science, a large number of visualization tools have been created to help researchers understand increasingly rich business databases. Information visualization is a process of constructing a visual presentation of business quantitative data, especially prepared for managerial use. Interactive information visualization provide researchers with remarkable tools for discovery and innovation. By combining powerful data mining methods with user-controlled interfaces, use...

  1. Flow visualization

    CERN Document Server

    Merzkirch, Wolfgang

    1974-01-01

    Flow Visualization describes the most widely used methods for visualizing flows. Flow visualization evaluates certain properties of a flow field directly accessible to visual perception. Organized into five chapters, this book first presents the methods that create a visible flow pattern that could be investigated by visual inspection, such as simple dye and density-sensitive visualization methods. It then deals with the application of electron beams and streaming birefringence. Optical methods for compressible flows, hydraulic analogy, and high-speed photography are discussed in other cha

  2. Properties of polycyclic aromatic hydrocarbons in the northwest photon dominated region of NGC 7023. II. Traditional PAH analysis using k-means as a visualization tool

    International Nuclear Information System (INIS)

    Boersma, C.; Bregman, J.; Allamandola, L. J.

    2014-01-01

    Polycyclic aromatic hydrocarbon (PAH) emission in the Spitzer-IRS spectral map of the northwest photon dominated region (PDR) in NGC 7023 is analyzed using the 'traditional' approach in which the PAH bands and plateaus between 5.2-19.5 μm are isolated by subtracting the underlying continuum and removing H 2 emission lines. The spectra are organized into seven spectroscopic bins by using k-means clustering. Each cluster corresponds to, and reveals, a morphological zone within NGC 7023. The zones self-organize parallel to the well-defined PDR front that coincides with an increase in intensity of the H 2 emission lines. PAH band profiles and integrated strengths are measured, classified, and mapped. The morphological zones revealed by the k-means clustering provides deeper insight into the conditions that drive variations in band strength ratios and evolution of the PAH population that otherwise would be lost. For example, certain band-band relations are bifurcated, revealing two limiting cases; one associated with the PDR, the other with the diffuse medium. Traditionally, PAH band strength ratios are used to gain insight into the properties of the emitting PAH population, i.e., charge, size, structure, and composition. Insights inferred from this work are compared and contrasted to those from Boersma et al. (first paper in this series), where the PAH emission in NGC 7023 is decomposed exclusively using the PAH spectra and tools made available through the NASA Ames PAH IR Spectroscopic Database.

  3. Visual field

    Science.gov (United States)

    ... your visual field. How the Test is Performed Confrontation visual field exam. This is a quick and ... to achieve this important distinction for online health information and services. Learn more about A.D.A. ...

  4. Properties of polycyclic aromatic hydrocarbons in the northwest photon dominated region of NGC 7023. II. Traditional PAH analysis using k-means as a visualization tool

    Energy Technology Data Exchange (ETDEWEB)

    Boersma, C.; Bregman, J.; Allamandola, L. J., E-mail: Christiaan.Boersma@nasa.gov [NASA Ames Research Center, MS 245-6, Moffett Field, CA 94035-0001 (United States)

    2014-11-10

    Polycyclic aromatic hydrocarbon (PAH) emission in the Spitzer-IRS spectral map of the northwest photon dominated region (PDR) in NGC 7023 is analyzed using the 'traditional' approach in which the PAH bands and plateaus between 5.2-19.5 μm are isolated by subtracting the underlying continuum and removing H{sub 2} emission lines. The spectra are organized into seven spectroscopic bins by using k-means clustering. Each cluster corresponds to, and reveals, a morphological zone within NGC 7023. The zones self-organize parallel to the well-defined PDR front that coincides with an increase in intensity of the H{sub 2} emission lines. PAH band profiles and integrated strengths are measured, classified, and mapped. The morphological zones revealed by the k-means clustering provides deeper insight into the conditions that drive variations in band strength ratios and evolution of the PAH population that otherwise would be lost. For example, certain band-band relations are bifurcated, revealing two limiting cases; one associated with the PDR, the other with the diffuse medium. Traditionally, PAH band strength ratios are used to gain insight into the properties of the emitting PAH population, i.e., charge, size, structure, and composition. Insights inferred from this work are compared and contrasted to those from Boersma et al. (first paper in this series), where the PAH emission in NGC 7023 is decomposed exclusively using the PAH spectra and tools made available through the NASA Ames PAH IR Spectroscopic Database.

  5. Visual management support system

    Science.gov (United States)

    Lee Anderson; Jerry Mosier; Geoffrey Chandler

    1979-01-01

    The Visual Management Support System (VMSS) is an extension of an existing computer program called VIEWIT, which has been extensively used by the U. S. Forest Service. The capabilities of this program lie in the rapid manipulation of large amounts of data, specifically opera-ting as a tool to overlay or merge one set of data with another. VMSS was conceived to...

  6. Visual soil evaluation

    DEFF Research Database (Denmark)

    Visual Soil Evaluation (VSE) provides land users and environmental authorities with the tools to assess soil quality for crop performance. This book describes the assessment of the various structural conditions of soil, especially after quality degradation such as compaction, erosion or organic...... and nutrient leaching, and for diagnosing and rectifying erosion and compaction in soils....

  7. Data visualization

    CERN Document Server

    Azzam, Tarek

    2013-01-01

    Do you communicate data and information to stakeholders? In Part 1, we introduce recent developments in the quantitative and qualitative data visualization field and provide a historical perspective on data visualization, its potential role in evaluation practice, and future directions. Part 2 delivers concrete suggestions for optimally using data visualization in evaluation, as well as suggestions for best practices in data visualization design. It focuses on specific quantitative and qualitative data visualization approaches that include data dashboards, graphic recording, and geographic information systems (GIS). Readers will get a step-by-step process for designing an effective data dashboard system for programs and organizations, and various suggestions to improve their utility.

  8. Visual Literacy and Visual Thinking.

    Science.gov (United States)

    Hortin, John A.

    It is proposed that visual literacy be defined as the ability to understand (read) and use (write) images and to think and learn in terms of images. This definition includes three basic principles: (1) visuals are a language and thus analogous to verbal language; (2) a visually literate person should be able to understand (read) images and use…

  9. Visual Literacy and Visual Culture.

    Science.gov (United States)

    Messaris, Paul

    Familiarity with specific images or sets of images plays a role in a culture's visual heritage. Two questions can be asked about this type of visual literacy: Is this a type of knowledge that is worth building into the formal educational curriculum of our schools? What are the educational implications of visual literacy? There is a three-part…

  10. Do Visual Aids Really Matter?

    Directory of Open Access Journals (Sweden)

    Kristine Fish

    2016-01-01

    Full Text Available Educational webcasts or video lectures as a teaching tool and a form of visual aid have become widely used with the rising prevalence of online and blended courses and with the increase of web-based video materials. Thus, research pertaining to factors enhancing the effectiveness of video lectures, such as number of visual aids, is critical. This study compared student evaluations before and after embedding additional visual aids throughout video lectures in an online course. Slide transitions occurred on average every 40 seconds for the pre-treatment group with approximately 600 visuals total, compared to slide transitions every 10 seconds for the post-treatment group with approximately 2,000 visuals total. All students received the same audio recordings. Research questions addressed are: (1 Are student perceptions of the effectiveness of examples used to illustrate concepts affected by number of visual aids? (2 Is the extent to which students feel engaged during the lectures affected by number of visual aids? (3 Are students’ perceived overall learning experiences affected by number of visual aids? Surprisingly, results indicate that for questions #1 and #3, student ratings of those who viewed videos with fewer visuals rated their experiences higher than students who viewed more visuals. There was no significant difference found for question #2. Conclusion: Although some visuals have been shown to enhance learning, too many visuals may be a deterrent to learning.

  11. Jupiter Environment Tool

    Science.gov (United States)

    Sturm, Erick J.; Monahue, Kenneth M.; Biehl, James P.; Kokorowski, Michael; Ngalande, Cedrick,; Boedeker, Jordan

    2012-01-01

    The Jupiter Environment Tool (JET) is a custom UI plug-in for STK that provides an interface to Jupiter environment models for visualization and analysis. Users can visualize the different magnetic field models of Jupiter through various rendering methods, which are fully integrated within STK s 3D Window. This allows users to take snapshots and make animations of their scenarios with magnetic field visualizations. Analytical data can be accessed in the form of custom vectors. Given these custom vectors, users have access to magnetic field data in custom reports, graphs, access constraints, coverage analysis, and anywhere else vectors are used within STK.

  12. Traffic Visualization

    DEFF Research Database (Denmark)

    Picozzi, Matteo; Verdezoto, Nervo; Pouke, Matti

    2013-01-01

    In this paper, we present a space-time visualization to provide city's decision-makers the ability to analyse and uncover important "city events" in an understandable manner for city planning activities. An interactive Web mashup visualization is presented that integrates several visualization...... techniques to give a rapid overview of traffic data. We illustrate our approach as a case study for traffic visualization systems, using datasets from the city of Oulu that can be extended to other city planning activities. We also report the feedback of real users (traffic management employees, traffic police...

  13. Visualization Laboratory

    Data.gov (United States)

    Federal Laboratory Consortium — FUNCTION: Evaluates and improves the operational effectiveness of existing and emerging electronic warfare systems. By analyzing and visualizing simulation results...

  14. Distributed Visualization

    Data.gov (United States)

    National Aeronautics and Space Administration — Distributed Visualization allows anyone, anywhere, to see any simulation, at any time. Development focuses on algorithms, software, data formats, data systems and...

  15. Visual masking & schizophrenia

    Directory of Open Access Journals (Sweden)

    Michael H. Herzog

    2015-06-01

    Full Text Available Visual masking is a frequently used tool in schizophrenia research. Visual masking has a very high sensitivity and specificity and masking paradigms have been proven to be endophenotypes. Whereas masking is a powerful technique to study schizophrenia, the underlying mechanisms are discussed controversially. For example, for more than 25 years, masking deficits of schizophrenia patients were mainly attributed to a deficient magno-cellular system (M-system. Here, we show that there is very little evidence that masking deficits are magno-cellular deficits. We will discuss the magno-cellular and other approaches in detail and highlight their pros and cons.

  16. Translating the Verbal to the Visual

    Science.gov (United States)

    Engbers, Susanna Kelly

    2012-01-01

    Communication has always been at least partly a visual experience--insofar as the speaker's appearance on a stage or the text's appearance on the page. Certainly, however, the experience is becoming more and more visual. Thus, equipping students with the tools necessary to analyze and evaluate the visual rhetoric that surrounds everyone is a task…

  17. Textile Visual Materials: Appropriate Technology in Action.

    Science.gov (United States)

    Donoghue, Beverly Emerson

    An innovative educational medium--screenprinted visual aids on cloth--is one alternative to conventional media in Africa, where visual materials are important communication tools but conventional media and materials are often scarce. A production process for cloth visual aids was developed and evaluated in Ghana and Sudan through the…

  18. Immersive Algorithms: Better Visualization with Less Information

    DEFF Research Database (Denmark)

    Bille, Philip; Gørtz, Inge Li

    2017-01-01

    Visualizing algorithms, such as drawings, slideshow presentations, animations, videos, and software tools, is a key concept to enhance and support student learning. A typical visualization of an algorithm show the data and then perform computation on the data. For instance, a standard visualization...

  19. How Scientists Develop Competence in Visual Communication

    Science.gov (United States)

    Ostergren, Marilyn

    2013-01-01

    Visuals (maps, charts, diagrams and illustrations) are an important tool for communication in most scientific disciplines, which means that scientists benefit from having strong visual communication skills. This dissertation examines the nature of competence in visual communication and the means by which scientists acquire this competence. This…

  20. Visualizing Repertory Grid Data for Formative Assessment

    DEFF Research Database (Denmark)

    Pantazos, Kostas; Vatrapu, Ravi; Hussain, Abid

    2013-01-01

    at facilitating data analysis through a visual and interactive approach, which allows users to understand their data, reflect, and make better decisions. This paper presents an interactive visualization tool for teachers and students. The tool visualizes repertory grid data using two dashboards, where teachers...... and students can investigate constructs and rating elements of students at the individual or group level. Visualizing the repertory grid data is an initial attempt towards teaching analytics. Future work will focus on evaluating the tool in a real setting with teachers and students, and collecting suggestions...

  1. Visual Impairment

    Science.gov (United States)

    ... site Sitio para adolescentes Body Mind Sexual Health Food & Fitness Diseases & Conditions Infections Drugs & Alcohol School & Jobs Sports Expert Answers (Q&A) Staying Safe Videos for Educators Search English Español Visual Impairment KidsHealth / For Teens / Visual Impairment What's in ...

  2. Visual attention

    NARCIS (Netherlands)

    Evans, K.K.; Horowitz, T.S.; Howe, P.; Pedersini, R.; Reijnen, E.; Pinto, Y.; Wolfe, J.M.

    2011-01-01

    A typical visual scene we encounter in everyday life is complex and filled with a huge amount of perceptual information. The term, ‘visual attention’ describes a set of mechanisms that limit some processing to a subset of incoming stimuli. Attentional mechanisms shape what we see and what we can act

  3. Visual Education

    DEFF Research Database (Denmark)

    Buhl, Mie; Flensborg, Ingelise

    2010-01-01

    The intrinsic breadth of various types of images creates new possibilities and challenges for visual education. The digital media have moved the boundaries between images and other kinds of modalities (e.g. writing, speech and sound) and have augmented the possibilities for integrating the functi......The intrinsic breadth of various types of images creates new possibilities and challenges for visual education. The digital media have moved the boundaries between images and other kinds of modalities (e.g. writing, speech and sound) and have augmented the possibilities for integrating...... to emerge in the interlocutory space of a global visual repertoire and diverse local interpretations. The two perspectives represent challenges for future visual education which require visual competences, not only within the arts but also within the subjects of natural sciences, social sciences, languages...

  4. Visual Analysis of Air Traffic Data

    Science.gov (United States)

    Albrecht, George Hans; Pang, Alex

    2012-01-01

    In this paper, we present visual analysis tools to help study the impact of policy changes on air traffic congestion. The tools support visualization of time-varying air traffic density over an area of interest using different time granularity. We use this visual analysis platform to investigate how changing the aircraft separation volume can reduce congestion while maintaining key safety requirements. The same platform can also be used as a decision aid for processing requests for unmanned aerial vehicle operations.

  5. Event visualization in ATLAS

    CERN Document Server

    AUTHOR|(INSPIRE)INSPIRE-00211497; The ATLAS collaboration; Boudreau, Joseph; Konstantinidis, Nikolaos; Martyniuk, Alex; Moyse, Edward; Thomas, Juergen; Waugh, Ben; Yallup, David

    2017-01-01

    At the beginning, HEP experiments made use of photographical images both to record and store experimental data and to illustrate their findings. Then the experiments evolved and needed to find ways to visualize their data. With the availability of computer graphics, software packages to display event data and the detector geometry started to be developed. Here, an overview of the usage of event display tools in HEP is presented. Then the case of the ATLAS experiment is considered in more detail and two widely used event display packages are presented, Atlantis and VP1, focusing on the software technologies they employ, as well as their strengths, differences and their usage in the experiment: from physics analysis to detector development, and from online monitoring to outreach and communication. Towards the end, the other ATLAS visualization tools will be briefly presented as well. Future development plans and improvements in the ATLAS event display packages will also be discussed.

  6. Visual cognition

    Science.gov (United States)

    Cavanagh, Patrick

    2011-01-01

    Visual cognition, high-level vision, mid-level vision and top-down processing all refer to decision-based scene analyses that combine prior knowledge with retinal input to generate representations. The label “visual cognition” is little used at present, but research and experiments on mid- and high-level, inference-based vision have flourished, becoming in the 21st century a significant, if often understated part, of current vision research. How does visual cognition work? What are its moving parts? This paper reviews the origins and architecture of visual cognition and briefly describes some work in the areas of routines, attention, surfaces, objects, and events (motion, causality, and agency). Most vision scientists avoid being too explicit when presenting concepts about visual cognition, having learned that explicit models invite easy criticism. What we see in the literature is ample evidence for visual cognition, but few or only cautious attempts to detail how it might work. This is the great unfinished business of vision research: at some point we will be done with characterizing how the visual system measures the world and we will have to return to the question of how vision constructs models of objects, surfaces, scenes, and events. PMID:21329719

  7. Visual cognition.

    Science.gov (United States)

    Cavanagh, Patrick

    2011-07-01

    Visual cognition, high-level vision, mid-level vision and top-down processing all refer to decision-based scene analyses that combine prior knowledge with retinal input to generate representations. The label "visual cognition" is little used at present, but research and experiments on mid- and high-level, inference-based vision have flourished, becoming in the 21st century a significant, if often understated part, of current vision research. How does visual cognition work? What are its moving parts? This paper reviews the origins and architecture of visual cognition and briefly describes some work in the areas of routines, attention, surfaces, objects, and events (motion, causality, and agency). Most vision scientists avoid being too explicit when presenting concepts about visual cognition, having learned that explicit models invite easy criticism. What we see in the literature is ample evidence for visual cognition, but few or only cautious attempts to detail how it might work. This is the great unfinished business of vision research: at some point we will be done with characterizing how the visual system measures the world and we will have to return to the question of how vision constructs models of objects, surfaces, scenes, and events. Copyright © 2011 Elsevier Ltd. All rights reserved.

  8. Using the Visualization Software Evaluation Rubric to explore six freely available visualization applications

    Directory of Open Access Journals (Sweden)

    Thea P. Atwood

    2018-01-01

    Full Text Available Objective: As a variety of visualization tools become available to librarians and researchers, it can be challenging to select a tool that is robust and flexible enough to provide the desired visualization outcomes for work or personal use. In this article, the authors provide guidance on several freely available tools, and offer a rubric for use in evaluating visualization tools. Methods: A rubric was generated to assist the authors in assessing the selected six freely available visualization tools. Each author analyzed three tools, and discussed the differences, similarities, challenges, and successes of each. Results: Of the six visualization tools, two tools emerged with high marks. The authors found that the rubric was a successful evaluation tool, and facilitated discussion on the strengths and weaknesses of the six selected visualization pieces of software. Conclusions: Of the six different visualization tools analyzed, all had different functions and features available to best meet the needs of users. In a situation where there are many options available, and it is difficult at first glance to determine a clear winner, a rubric can be useful in providing a method to quickly assess and communicate the effectiveness of a tool.

  9. Visual dataflow language for educational robots programming

    OpenAIRE

    ZIMIN G.A.; MORDVINOV D.A.

    2016-01-01

    Visual domain-specific languages usually have low entry barrier. Sometimes even children can program on such languages by working with visual representations. This is widely used in educational robotics domain, where most commonly used programming environments are visual. The paper describes a novel dataflow visual programming environment for embedded robotic platforms. Obviously, complex dataflow languages are not simple for understanding. The purpose of our tool is to "bridge" between light...

  10. The importance of visualization in cartographic communication

    Directory of Open Access Journals (Sweden)

    Ikonović Vesna

    2011-01-01

    Full Text Available Visualization is a field of computer graphics which explores the analytical and communication possibilities of visual presentation. Visualization explores the possibilities of using images, similar to three-dimensional world, as models so that analysis and communication can be improved. Visualization depends on new computer techniques of data analysis and presentation, as well as on the accuracy, exactness and form of said data. Visualization is a scientific tool, but its application demands art, imagination and intuition. Visualization demands the use of the latest and the best computer technology.

  11. Creating visual explanations improves learning.

    Science.gov (United States)

    Bobek, Eliza; Tversky, Barbara

    2016-01-01

    Many topics in science are notoriously difficult for students to learn. Mechanisms and processes outside student experience present particular challenges. While instruction typically involves visualizations, students usually explain in words. Because visual explanations can show parts and processes of complex systems directly, creating them should have benefits beyond creating verbal explanations. We compared learning from creating visual or verbal explanations for two STEM domains, a mechanical system (bicycle pump) and a chemical system (bonding). Both kinds of explanations were analyzed for content and learning assess by a post-test. For the mechanical system, creating a visual explanation increased understanding particularly for participants of low spatial ability. For the chemical system, creating both visual and verbal explanations improved learning without new teaching. Creating a visual explanation was superior and benefitted participants of both high and low spatial ability. Visual explanations often included crucial yet invisible features. The greater effectiveness of visual explanations appears attributable to the checks they provide for completeness and coherence as well as to their roles as platforms for inference. The benefits should generalize to other domains like the social sciences, history, and archeology where important information can be visualized. Together, the findings provide support for the use of learner-generated visual explanations as a powerful learning tool.

  12. The effect of the sea on hazard assessment for tephra fallout at Campi Flegrei: a preliminary approach through the use of pyPHaz, an open tool to analyze and visualize probabilistic hazards

    Science.gov (United States)

    Tonini, Roberto; Sandri, Laura; Costa, Antonio; Selva, Jacopo

    2014-05-01

    Campi Flegrei (CF) is a large volcanic field located west of the Gulf of Naples, characterized by a wide and almost circular caldera which is partially submerged beneath the Gulf of Pozzuoli. It is known that the magma-water interaction is a key element to determine the character of submarine eruptions and their impact on the surrounding areas, but this phenomenon is still not well understood and it is rarely considered in hazard assessment. The aim of the present work is to present a preliminary study of the effect of the sea on the tephra fall hazard from CF on the municipality of Naples, by introducing a variability in the probability of tephra production according to the eruptive scale (defined on the basis of the erupted volume) and the depth of the opening submerged vents. Four different Probabilistic Volcanic Hazard Assessment (PVHA) models have been defined through the application of the model BET_VH at CF, by accounting for different modeling procedures and assumptions for the submerged part of the caldera. In particular, we take into account: 1) the effect of the sea as null, i.e. as if the water were not present; 2) the effect of the sea as a cap that totally blocks the explosivity of eruptions and consequently the tephra production; 3) an ensemble model between the two models described at the previous points 1) and 2); 4) a variable probability of tephra production depending on the depth of the submerged vent. The PVHA models are then input to pyPHaz, a tool developed and designed at INGV to visualize, analyze and merge into ensemble models PVHA's results and, potentially, any other kind of probabilistic hazard assessment, both natural and anthropic, in order to evaluate the importance of considering a variability among subaerial and submerged vents on tephra fallout hazard from CF in Naples. The analysis is preliminary and does not pretend to be exhaustive, but on one hand it represents a starting point for future works; on the other hand, it is a good

  13. VisComposer: A Visual Programmable Composition Environment for Information Visualization

    Directory of Open Access Journals (Sweden)

    Honghui Mei

    2018-03-01

    Full Text Available As the amount of data being collected has increased, the need for tools that can enable the visual exploration of data has also grown. This has led to the development of a variety of widely used programming frameworks for information visualization. Unfortunately, such frameworks demand comprehensive visualization and coding skills and require users to develop visualization from scratch. An alternative is to create interactive visualization design environments that require little to no programming. However, these tools only supports a small portion of visual forms.We present a programmable integrated development environment (IDE, VisComposer, that supports the development of expressive visualization using a drag-and-drop visual interface. VisComposer exposes the programmability by customizing desired components within a modularized visualization composition pipeline, effectively balancing the capability gap between expert coders and visualization artists. The implemented system empowers users to compose comprehensive visualizations with real-time preview and optimization features, and supports prototyping, sharing and reuse of the effects by means of an intuitive visual composer. Visual programming and textual programming integrated in our system allow users to compose more complex visual effects while retaining the simplicity of use. We demonstrate the performance of VisComposer with a variety of examples and an informal user evaluation. Keywords: Information Visualization, Visualization authoring, Interactive development environment

  14. Visual cognition

    Energy Technology Data Exchange (ETDEWEB)

    Pinker, S.

    1985-01-01

    This book consists of essays covering issues in visual cognition presenting experimental techniques from cognitive psychology, methods of modeling cognitive processes on computers from artificial intelligence, and methods of studying brain organization from neuropsychology. Topics considered include: parts of recognition; visual routines; upward direction; mental rotation, and discrimination of left and right turns in maps; individual differences in mental imagery, computational analysis and the neurological basis of mental imagery: componental analysis.

  15. Software attribute visualization for high integrity software

    Energy Technology Data Exchange (ETDEWEB)

    Pollock, G.M.

    1998-03-01

    This report documents a prototype tool developed to investigate the use of visualization and virtual reality technologies for improving software surety confidence. The tool is utilized within the execution phase of the software life cycle. It provides a capability to monitor an executing program against prespecified requirements constraints provided in a program written in the requirements specification language SAGE. The resulting Software Attribute Visual Analysis Tool (SAVAnT) also provides a technique to assess the completeness of a software specification.

  16. Chess Evolution Visualization.

    Science.gov (United States)

    Lu, Wei-Li; Wang, Yu-Shuen; Lin, Wen-Chieh

    2014-05-01

    We present a chess visualization to convey the changes in a game over successive generations. It contains a score chart, an evolution graph and a chess board, such that users can understand a game from global to local viewpoints. Unlike current graphical chess tools, which focus only on highlighting pieces that are under attack and require sequential investigation, our visualization shows potential outcomes after a piece is moved and indicates how much tactical advantage the player can have over the opponent. Users can first glance at the score chart to roughly obtain the growth and decline of advantages from both sides, and then examine the position relations and the piece placements, to know how the pieces are controlled and how the strategy works. To achieve this visualization, we compute the decision tree using artificial intelligence to analyze a game, in which each node represents a chess position and each edge connects two positions that are one-move different. We then merge nodes representing the same chess position, and shorten branches where nodes on them contain only two neighbors, in order to achieve readability. During the graph rendering, the nodes containing events such as draws, effective checks and checkmates, are highlighted because they show how a game is ended. As a result, our visualization helps players understand a chess game so that they can efficiently learn strategies and tactics. The presented results, evaluations, and the conducted user studies demonstrate the feasibility of our visualization design.

  17. Visual search, visual streams, and visual architectures.

    Science.gov (United States)

    Green, M

    1991-10-01

    Most psychological, physiological, and computational models of early vision suggest that retinal information is divided into a parallel set of feature modules. The dominant theories of visual search assume that these modules form a "blackboard" architecture: a set of independent representations that communicate only through a central processor. A review of research shows that blackboard-based theories, such as feature-integration theory, cannot easily explain the existing data. The experimental evidence is more consistent with a "network" architecture, which stresses that: (1) feature modules are directly connected to one another, (2) features and their locations are represented together, (3) feature detection and integration are not distinct processing stages, and (4) no executive control process, such as focal attention, is needed to integrate features. Attention is not a spotlight that synthesizes objects from raw features. Instead, it is better to conceptualize attention as an aperture which masks irrelevant visual information.

  18. Visualizing water

    Science.gov (United States)

    Baart, F.; van Gils, A.; Hagenaars, G.; Donchyts, G.; Eisemann, E.; van Velzen, J. W.

    2016-12-01

    A compelling visualization is captivating, beautiful and narrative. Here we show how melding the skills of computer graphics, art, statistics, and environmental modeling can be used to generate innovative, attractive and very informative visualizations. We focus on the topic of visualizing forecasts and measurements of water (water level, waves, currents, density, and salinity). For the field of computer graphics and arts, water is an important topic because it occurs in many natural scenes. For environmental modeling and statistics, water is an important topic because the water is essential for transport, a healthy environment, fruitful agriculture, and a safe environment.The different disciplines take different approaches to visualizing water. In computer graphics, one focusses on creating water as realistic looking as possible. The focus on realistic perception (versus the focus on the physical balance pursued by environmental scientists) resulted in fascinating renderings, as seen in recent games and movies. Visualization techniques for statistical results have benefited from the advancement in design and journalism, resulting in enthralling infographics. The field of environmental modeling has absorbed advances in contemporary cartography as seen in the latest interactive data-driven maps. We systematically review the design emerging types of water visualizations. The examples that we analyze range from dynamically animated forecasts, interactive paintings, infographics, modern cartography to web-based photorealistic rendering. By characterizing the intended audience, the design choices, the scales (e.g. time, space), and the explorability we provide a set of guidelines and genres. The unique contributions of the different fields show how the innovations in the current state of the art of water visualization have benefited from inter-disciplinary collaborations.

  19. A graph algebra for scalable visual analytics.

    Science.gov (United States)

    Shaverdian, Anna A; Zhou, Hao; Michailidis, George; Jagadish, Hosagrahar V

    2012-01-01

    Visual analytics (VA), which combines analytical techniques with advanced visualization features, is fast becoming a standard tool for extracting information from graph data. Researchers have developed many tools for this purpose, suggesting a need for formal methods to guide these tools' creation. Increased data demands on computing requires redesigning VA tools to consider performance and reliability in the context of analysis of exascale datasets. Furthermore, visual analysts need a way to document their analyses for reuse and results justification. A VA graph framework encapsulated in a graph algebra helps address these needs. Its atomic operators include selection and aggregation. The framework employs a visual operator and supports dynamic attributes of data to enable scalable visual exploration of data.

  20. Interactive data visualization foundations, techniques, and applications

    CERN Document Server

    Ward, Matthew; Keim, Daniel

    2010-01-01

    Visualization is the process of representing data, information, and knowledge in a visual form to support the tasks of exploration, confirmation, presentation, and understanding. This book is designed as a textbook for students, researchers, analysts, professionals, and designers of visualization techniques, tools, and systems. It covers the full spectrum of the field, including mathematical and analytical aspects, ranging from its foundations to human visual perception; from coded algorithms for different types of data, information and tasks to the design and evaluation of new visualization techniques. Sample programs are provided as starting points for building one's own visualization tools. Numerous data sets have been made available that highlight different application areas and allow readers to evaluate the strengths and weaknesses of different visualization methods. Exercises, programming projects, and related readings are given for each chapter. The book concludes with an examination of several existin...