WorldWideScience

Sample records for function based toolkit

  1. ECCE Toolkit: Prototyping Sensor-Based Interaction

    Science.gov (United States)

    Bellucci, Andrea; Aedo, Ignacio; Díaz, Paloma

    2017-01-01

    Building and exploring physical user interfaces requires high technical skills and hours of specialized work. The behavior of multiple devices with heterogeneous input/output channels and connectivity has to be programmed in a context where not only the software interface matters, but also the hardware components are critical (e.g., sensors and actuators). Prototyping physical interaction is hindered by the challenges of: (1) programming interactions among physical sensors/actuators and digital interfaces; (2) implementing functionality for different platforms in different programming languages; and (3) building custom electronic-incorporated objects. We present ECCE (Entities, Components, Couplings and Ecosystems), a toolkit for non-programmers that copes with these issues by abstracting from low-level implementations, thus lowering the complexity of prototyping small-scale, sensor-based physical interfaces to support the design process. A user evaluation provides insights and use cases of the kind of applications that can be developed with the toolkit. PMID:28241502

  2. ECCE Toolkit: Prototyping Sensor-Based Interaction.

    Science.gov (United States)

    Bellucci, Andrea; Aedo, Ignacio; Díaz, Paloma

    2017-02-23

    Building and exploring physical user interfaces requires high technical skills and hours of specialized work. The behavior of multiple devices with heterogeneous input/output channels and connectivity has to be programmed in a context where not only the software interface matters, but also the hardware components are critical (e.g., sensors and actuators). Prototyping physical interaction is hindered by the challenges of: (1) programming interactions among physical sensors/actuators and digital interfaces; (2) implementing functionality for different platforms in different programming languages; and (3) building custom electronic-incorporated objects. We present ECCE (Entities, Components, Couplings and Ecosystems), a toolkit for non-programmers that copes with these issues by abstracting from low-level implementations, thus lowering the complexity of prototyping small-scale, sensor-based physical interfaces to support the design process. A user evaluation provides insights and use cases of the kind of applications that can be developed with the toolkit.

  3. ECCE Toolkit: Prototyping Sensor-Based Interaction

    Directory of Open Access Journals (Sweden)

    Andrea Bellucci

    2017-02-01

    Full Text Available Building and exploring physical user interfaces requires high technical skills and hours of specialized work. The behavior of multiple devices with heterogeneous input/output channels and connectivity has to be programmed in a context where not only the software interface matters, but also the hardware components are critical (e.g., sensors and actuators. Prototyping physical interaction is hindered by the challenges of: (1 programming interactions among physical sensors/actuators and digital interfaces; (2 implementing functionality for different platforms in different programming languages; and (3 building custom electronic-incorporated objects. We present ECCE (Entities, Components, Couplings and Ecosystems, a toolkit for non-programmers that copes with these issues by abstracting from low-level implementations, thus lowering the complexity of prototyping small-scale, sensor-based physical interfaces to support the design process. A user evaluation provides insights and use cases of the kind of applications that can be developed with the toolkit.

  4. XDANNG: XML based Distributed Artificial Neural Network with Globus Toolkit

    CERN Document Server

    Mahini, Hamidreza; Ghofrani, Javad

    2009-01-01

    Artificial Neural Network is one of the most common AI application fields. This field has direct and indirect usages most sciences. The main goal of ANN is to imitate biological neural networks for solving scientific problems. But the level of parallelism is the main problem of ANN systems in comparison with biological systems. To solve this problem, we have offered a XML-based framework for implementing ANN on the Globus Toolkit Platform. Globus Toolkit is well known management software for multipurpose Grids. Using the Grid for simulating the neuron network will lead to a high degree of parallelism in the implementation of ANN. We have used the XML for improving flexibility and scalability in our framework.

  5. Matlab based Toolkits used to Interface with Optical Design Software for NASA's James Webb Space Telescope

    Science.gov (United States)

    Howard, Joseph

    2007-01-01

    The viewgraph presentation provides an introduction to the James Webb Space Telescope (JWST). The first part provides a brief overview of Matlab toolkits including CodeV, OSLO, and Zemax Toolkits. The toolkit overview examines purpose, layout, how Matlab gets data from CodeV, function layout, and using cvHELP. The second part provides examples of use with JWST, including wavefront sensitivities and alignment simulations.

  6. Targeting protein function: the expanding toolkit for conditional disruption.

    Science.gov (United States)

    Campbell, Amy E; Bennett, Daimark

    2016-09-01

    A major objective in biological research is to understand spatial and temporal requirements for any given gene, especially in dynamic processes acting over short periods, such as catalytically driven reactions, subcellular transport, cell division, cell rearrangement and cell migration. The interrogation of such processes requires the use of rapid and flexible methods of interfering with gene function. However, many of the most widely used interventional approaches, such as RNAi or CRISPR (clustered regularly interspaced short palindromic repeats)-Cas9 (CRISPR-associated 9), operate at the level of the gene or its transcripts, meaning that the effects of gene perturbation are exhibited over longer time frames than the process under investigation. There has been much activity over the last few years to address this fundamental problem. In the present review, we describe recent advances in disruption technologies acting at the level of the expressed protein, involving inducible methods of protein cleavage, (in)activation, protein sequestration or degradation. Drawing on examples from model organisms we illustrate the utility of fast-acting techniques and discuss how different components of the molecular toolkit can be employed to dissect previously intractable biochemical processes and cellular behaviours.

  7. REST: a toolkit for resting-state functional magnetic resonance imaging data processing.

    Science.gov (United States)

    Song, Xiao-Wei; Dong, Zhang-Ye; Long, Xiang-Yu; Li, Su-Fang; Zuo, Xi-Nian; Zhu, Chao-Zhe; He, Yong; Yan, Chao-Gan; Zang, Yu-Feng

    2011-01-01

    Resting-state fMRI (RS-fMRI) has been drawing more and more attention in recent years. However, a publicly available, systematically integrated and easy-to-use tool for RS-fMRI data processing is still lacking. We developed a toolkit for the analysis of RS-fMRI data, namely the RESting-state fMRI data analysis Toolkit (REST). REST was developed in MATLAB with graphical user interface (GUI). After data preprocessing with SPM or AFNI, a few analytic methods can be performed in REST, including functional connectivity analysis based on linear correlation, regional homogeneity, amplitude of low frequency fluctuation (ALFF), and fractional ALFF. A few additional functions were implemented in REST, including a DICOM sorter, linear trend removal, bandpass filtering, time course extraction, regression of covariates, image calculator, statistical analysis, and slice viewer (for result visualization, multiple comparison correction, etc.). REST is an open-source package and is freely available at http://www.restfmri.net.

  8. CaGrid Workflow Toolkit: A taverna based workflow tool for cancer grid

    Directory of Open Access Journals (Sweden)

    Sulakhe Dinanath

    2010-11-01

    Full Text Available Abstract Background In biological and medical domain, the use of web services made the data and computation functionality accessible in a unified manner, which helped automate the data pipeline that was previously performed manually. Workflow technology is widely used in the orchestration of multiple services to facilitate in-silico research. Cancer Biomedical Informatics Grid (caBIG is an information network enabling the sharing of cancer research related resources and caGrid is its underlying service-based computation infrastructure. CaBIG requires that services are composed and orchestrated in a given sequence to realize data pipelines, which are often called scientific workflows. Results CaGrid selected Taverna as its workflow execution system of choice due to its integration with web service technology and support for a wide range of web services, plug-in architecture to cater for easy integration of third party extensions, etc. The caGrid Workflow Toolkit (or the toolkit for short, an extension to the Taverna workflow system, is designed and implemented to ease building and running caGrid workflows. It provides users with support for various phases in using workflows: service discovery, composition and orchestration, data access, and secure service invocation, which have been identified by the caGrid community as challenging in a multi-institutional and cross-discipline domain. Conclusions By extending the Taverna Workbench, caGrid Workflow Toolkit provided a comprehensive solution to compose and coordinate services in caGrid, which would otherwise remain isolated and disconnected from each other. Using it users can access more than 140 services and are offered with a rich set of features including discovery of data and analytical services, query and transfer of data, security protections for service invocations, state management in service interactions, and sharing of workflows, experiences and best practices. The proposed solution is

  9. CaGrid Workflow Toolkit: a Taverna based workflow tool for cancer grid.

    Science.gov (United States)

    Tan, Wei; Madduri, Ravi; Nenadic, Alexandra; Soiland-Reyes, Stian; Sulakhe, Dinanath; Foster, Ian; Goble, Carole A

    2010-11-02

    In biological and medical domain, the use of web services made the data and computation functionality accessible in a unified manner, which helped automate the data pipeline that was previously performed manually. Workflow technology is widely used in the orchestration of multiple services to facilitate in-silico research. Cancer Biomedical Informatics Grid (caBIG) is an information network enabling the sharing of cancer research related resources and caGrid is its underlying service-based computation infrastructure. CaBIG requires that services are composed and orchestrated in a given sequence to realize data pipelines, which are often called scientific workflows. CaGrid selected Taverna as its workflow execution system of choice due to its integration with web service technology and support for a wide range of web services, plug-in architecture to cater for easy integration of third party extensions, etc. The caGrid Workflow Toolkit (or the toolkit for short), an extension to the Taverna workflow system, is designed and implemented to ease building and running caGrid workflows. It provides users with support for various phases in using workflows: service discovery, composition and orchestration, data access, and secure service invocation, which have been identified by the caGrid community as challenging in a multi-institutional and cross-discipline domain. By extending the Taverna Workbench, caGrid Workflow Toolkit provided a comprehensive solution to compose and coordinate services in caGrid, which would otherwise remain isolated and disconnected from each other. Using it users can access more than 140 services and are offered with a rich set of features including discovery of data and analytical services, query and transfer of data, security protections for service invocations, state management in service interactions, and sharing of workflows, experiences and best practices. The proposed solution is general enough to be applicable and reusable within other

  10. LBTool: A stochastic toolkit for leave-based key updates

    DEFF Research Database (Denmark)

    Yuksel, Ender; Nielson, Hanne Riis; Nielson, Flemming

    2012-01-01

    Quantitative techniques have been successfully employed in verification of information and communication systems. However, the use of such techniques are still rare in the area of security. In this paper, we present a toolkit that implements transient analysis on a key update method for wireless ...

  11. Analysis on the Use Method and the Function of Resource Description and Access Toolkit%RDA Toolkit的功能及使用方法解析

    Institute of Scientific and Technical Information of China (English)

    姜化林

    2012-01-01

    RDA Toolkit is the compositive and dynamic on-line product, which is based on the browser. It is consist of RDA full text, tools and resources. RDA Toolkit is created for users all over the world to know and promote the use of RDA, which is a kind of new rule for cataloging. RDA Toolkit has three kinds of the user authentication: unauthorized users, authenticated users and individual configuration users. It also has the menu function, search function, personalized Toolkit functions and other functions.%RDA Toolkit是一个集成、动态并基于浏览器的在线产品,由RDA全文、工具及资源3个部分构成。它的问世便于世界范围内的用户了解并推广使用RDA这种新的编目规则。RDAToolkit的用户身份有3种:未经授权的用户、认证用户和个人配置用户。RDAToolkit具有菜单功能、搜索功能、个性化工具包功能及其他功能。

  12. Development of a Human Physiologically Based Pharmacokinetic (PBPK Toolkit for Environmental Pollutants

    Directory of Open Access Journals (Sweden)

    Patricia Ruiz

    2011-10-01

    Full Text Available Physiologically Based Pharmacokinetic (PBPK models can be used to determine the internal dose and strengthen exposure assessment. Many PBPK models are available, but they are not easily accessible for field use. The Agency for Toxic Substances and Disease Registry (ATSDR has conducted translational research to develop a human PBPK model toolkit by recoding published PBPK models. This toolkit, when fully developed, will provide a platform that consists of a series of priority PBPK models of environmental pollutants. Presented here is work on recoded PBPK models for volatile organic compounds (VOCs and metals. Good agreement was generally obtained between the original and the recoded models. This toolkit will be available for ATSDR scientists and public health assessors to perform simulations of exposures from contaminated environmental media at sites of concern and to help interpret biomonitoring data. It can be used as screening tools that can provide useful information for the protection of the public.

  13. Python-based geometry preparation and simulation visualization toolkits for STEPS.

    Science.gov (United States)

    Chen, Weiliang; De Schutter, Erik

    2014-01-01

    STEPS is a stochastic reaction-diffusion simulation engine that implements a spatial extension of Gillespie's Stochastic Simulation Algorithm (SSA) in complex tetrahedral geometries. An extensive Python-based interface is provided to STEPS so that it can interact with the large number of scientific packages in Python. However, a gap existed between the interfaces of these packages and the STEPS user interface, where supporting toolkits could reduce the amount of scripting required for research projects. This paper introduces two new supporting toolkits that support geometry preparation and visualization for STEPS simulations.

  14. Python-Based Geometry Preparation and Simulation Visualization Toolkits for STEPS

    Directory of Open Access Journals (Sweden)

    Weiliang eChen

    2014-04-01

    Full Text Available STEPS is a stochastic reaction-diffusion simulation engine that implements a spatial extension of Gillespie’s Stochastic Simulation Algorithm (SSA in complex tetrahedral geometries. An extensive Python-based interface is provided to STEPS so that it can interact with the large number of scientific packages in Python. However, a gap existed between the interfaces of these packages and the STEPS user interface, where supporting toolkits could reduce the amount of scripting required for research projects. This paper introduces two new supporting toolkits that support geometry preparation and visualization for STEPS simulations.

  15. WING/WORLD: An Open Experimental Toolkit for the Design and Deployment of IEEE 802.11-Based Wireless Mesh Networks Testbeds

    Directory of Open Access Journals (Sweden)

    Daniele Miorandi

    2010-01-01

    Full Text Available Wireless Mesh Networks represent an interesting instance of light-infrastructure wireless networks. Due to their flexibility and resiliency to network failures, wireless mesh networks are particularly suitable for incremental and rapid deployments of wireless access networks in both metropolitan and rural areas. This paper illustrates the design and development of an open toolkit aimed at supporting the design of different solutions for wireless mesh networking by enabling real evaluation, validation, and demonstration. The resulting testbed is based on off-the-shelf hardware components and open-source software and is focused on IEEE 802.11 commodity devices. The software toolkit is based on an “open” philosophy and aims at providing the scientific community with a tool for effective and reproducible performance analysis of WMNs. The paper describes the architecture of the toolkit, and its core functionalities, as well as its potential evolutions.

  16. A new open-source Python-based Space Weather data access, visualization, and analysis toolkit

    Science.gov (United States)

    de Larquier, S.; Ribeiro, A.; Frissell, N. A.; Spaleta, J.; Kunduri, B.; Thomas, E. G.; Ruohoniemi, J.; Baker, J. B.

    2013-12-01

    Space weather research relies heavily on combining and comparing data from multiple observational platforms. Current frameworks exist to aggregate some of the data sources, most based on file downloads via web or ftp interfaces. Empirical models are mostly fortran based and lack interfaces with more useful scripting languages. In an effort to improve data and model access, the SuperDARN community has been developing a Python-based Space Science Data Visualization Toolkit (DaViTpy). At the center of this development was a redesign of how our data (from 30 years of SuperDARN radars) was made available. Several access solutions are now wrapped into one convenient Python interface which probes local directories, a new remote NoSQL database, and an FTP server to retrieve the requested data based on availability. Motivated by the efficiency of this interface and the inherent need for data from multiple instruments, we implemented similar modules for other space science datasets (POES, OMNI, Kp, AE...), and also included fundamental empirical models with Python interfaces to enhance data analysis (IRI, HWM, MSIS...). All these modules and more are gathered in a single convenient toolkit, which is collaboratively developed and distributed using Github and continues to grow. While still in its early stages, we expect this toolkit will facilitate multi-instrument space weather research and improve scientific productivity.

  17. Antenna toolkit

    CERN Document Server

    Carr, Joseph

    2006-01-01

    Joe Carr has provided radio amateurs and short-wave listeners with the definitive design guide for sending and receiving radio signals with Antenna Toolkit 2nd edition.Together with the powerful suite of CD software, the reader will have a complete solution for constructing or using an antenna - bar the actual hardware! The software provides a simple Windows-based aid to carrying out the design calculations at the heart of successful antenna design. All the user needs to do is select the antenna type and set the frequency - a much more fun and less error prone method than using a con

  18. A lightweight, flow-based toolkit for parallel and distributed bioinformatics pipelines

    Directory of Open Access Journals (Sweden)

    Cieślik Marcin

    2011-02-01

    Full Text Available Abstract Background Bioinformatic analyses typically proceed as chains of data-processing tasks. A pipeline, or 'workflow', is a well-defined protocol, with a specific structure defined by the topology of data-flow interdependencies, and a particular functionality arising from the data transformations applied at each step. In computer science, the dataflow programming (DFP paradigm defines software systems constructed in this manner, as networks of message-passing components. Thus, bioinformatic workflows can be naturally mapped onto DFP concepts. Results To enable the flexible creation and execution of bioinformatics dataflows, we have written a modular framework for parallel pipelines in Python ('PaPy'. A PaPy workflow is created from re-usable components connected by data-pipes into a directed acyclic graph, which together define nested higher-order map functions. The successive functional transformations of input data are evaluated on flexibly pooled compute resources, either local or remote. Input items are processed in batches of adjustable size, all flowing one to tune the trade-off between parallelism and lazy-evaluation (memory consumption. An add-on module ('NuBio' facilitates the creation of bioinformatics workflows by providing domain specific data-containers (e.g., for biomolecular sequences, alignments, structures and functionality (e.g., to parse/write standard file formats. Conclusions PaPy offers a modular framework for the creation and deployment of parallel and distributed data-processing workflows. Pipelines derive their functionality from user-written, data-coupled components, so PaPy also can be viewed as a lightweight toolkit for extensible, flow-based bioinformatics data-processing. The simplicity and flexibility of distributed PaPy pipelines may help users bridge the gap between traditional desktop/workstation and grid computing. PaPy is freely distributed as open-source Python code at http://muralab.org/PaPy, and

  19. LIVVkit: An extensible, python-based, land ice verification and validation toolkit for ice sheet models

    Science.gov (United States)

    Kennedy, Joseph H.; Bennett, Andrew R.; Evans, Katherine J.; Price, Stephen; Hoffman, Matthew; Lipscomb, William H.; Fyke, Jeremy; Vargo, Lauren; Boghozian, Adrianna; Norman, Matthew; Worley, Patrick H.

    2017-06-01

    To address the pressing need to better understand the behavior and complex interaction of ice sheets within the global Earth system, significant development of continental-scale, dynamical ice sheet models is underway. Concurrent to the development of the Community Ice Sheet Model (CISM), the corresponding verification and validation (V&V) process is being coordinated through a new, robust, Python-based extensible software package, the Land Ice Verification and Validation toolkit (LIVVkit). Incorporated into the typical ice sheet model development cycle, it provides robust and automated numerical verification, software verification, performance validation, and physical validation analyses on a variety of platforms, from personal laptops to the largest supercomputers. LIVVkit operates on sets of regression test and reference data sets, and provides comparisons for a suite of community prioritized tests, including configuration and parameter variations, bit-for-bit evaluation, and plots of model variables to indicate where differences occur. LIVVkit also provides an easily extensible framework to incorporate and analyze results of new intercomparison projects, new observation data, and new computing platforms. LIVVkit is designed for quick adaptation to additional ice sheet models via abstraction of model specific code, functions, and configurations into an ice sheet model description bundle outside the main LIVVkit structure. Ultimately, through shareable and accessible analysis output, LIVVkit is intended to help developers build confidence in their models and enhance the credibility of ice sheet models overall.

  20. Calculation of thermodynamic and transport properties of thermal plasmas based on the Cantera software toolkit

    Science.gov (United States)

    Doiron, Charles; Hencken, Kai

    2013-09-01

    Computational fluid-dynamic simulations nowadays play a central role in the development of new gas circuit breakers. For these simulations to be reliable, a good knowledge of the pressure and temperature-dependence of the thermodynamic and transport properties of ionized gases is required. A key ingredient in the calculation of thermodynamic properties of thermal plasmas is the calculation of the chemical equilibrium composition of the gas. The general-purpose, open-source software toolkit Cantera provides most functionality required to carry out such thermodynamic calculations. In this contribution, we explain how we tailored Cantera specifically to calculate material properties of plasmas. The highly modular architecture of this framework made it possible to add support for Debye-Hückel non-ideality corrections in the calculation of the chemical equilibrium mixture, as well as to enable the calculation of the key transport parameters needed in CFD-based electric arc simulations: electrical and thermal conductivity, viscosity, and diffusion coefficients. As an example, we discuss the thermodynamic and transport properties of mixtures of carbon dioxide and copper vapor.

  1. A Cas9-based toolkit to program gene expression in Saccharomyces cerevisiae

    Science.gov (United States)

    Reider Apel, Amanda; d'Espaux, Leo; Wehrs, Maren; Sachs, Daniel; Li, Rachel A.; Tong, Gary J.; Garber, Megan; Nnadi, Oge; Zhuang, William; Hillson, Nathan J.; Keasling, Jay D.; Mukhopadhyay, Aindrila

    2017-01-01

    Despite the extensive use of Saccharomyces cerevisiae as a platform for synthetic biology, strain engineering remains slow and laborious. Here, we employ CRISPR/Cas9 technology to build a cloning-free toolkit that addresses commonly encountered obstacles in metabolic engineering, including chromosomal integration locus and promoter selection, as well as protein localization and solubility. The toolkit includes 23 Cas9-sgRNA plasmids, 37 promoters of various strengths and temporal expression profiles, and 10 protein-localization, degradation and solubility tags. We facilitated the use of these parts via a web-based tool, that automates the generation of DNA fragments for integration. Our system builds upon existing gene editing methods in the thoroughness with which the parts are standardized and characterized, the types and number of parts available and the ease with which our methodology can be used to perform genetic edits in yeast. We demonstrated the applicability of this toolkit by optimizing the expression of a challenging but industrially important enzyme, taxadiene synthase (TXS). This approach enabled us to diagnose an issue with TXS solubility, the resolution of which yielded a 25-fold improvement in taxadiene production. PMID:27899650

  2. HALE Toolkit (HTK) Project

    Data.gov (United States)

    National Aeronautics and Space Administration — Development of a toolkit for optimization and virtual flight test of HALE vehicles is proposed based on extensions of the IHAT system for integrated...

  3. Template-based education toolkit for mobile platforms

    Science.gov (United States)

    Golagani, Santosh Chandana; Esfahanian, Moosa; Akopian, David

    2012-02-01

    Nowadays mobile phones are the most widely used portable devices which evolve very fast adding new features and improving user experiences. The latest generation of hand-held devices called smartphones is equipped with superior memory, cameras and rich multimedia features, empowering people to use their mobile phones not only as a communication tool but also for entertainment purposes. With many young students showing interest in learning mobile application development one should introduce novel learning methods which may adapt to fast technology changes and introduce students to application development. Mobile phones become a common device, and engineering community incorporates phones in various solutions. Overcoming the limitations of conventional undergraduate electrical engineering (EE) education this paper explores the concept of template-based based education in mobile phone programming. The concept is based on developing small exercise templates which students can manipulate and revise for quick hands-on introduction to the application development and integration. Android platform is used as a popular open source environment for application development. The exercises relate to image processing topics typically studied by many students. The goal is to enable conventional course enhancements by incorporating in them short hands-on learning modules.

  4. The Identification of Potential Resilient Estuary-based Enterprises to Encourage Economic Empowerment in South Africa: a Toolkit Approach

    Directory of Open Access Journals (Sweden)

    Myles Mander

    2012-09-01

    Full Text Available It has been argued that ecosystem services can be used as the foundation to provide economic opportunities to empower the disadvantaged. The Ecosystem Services Framework (ESF approach for poverty alleviation, which balances resource conservation and human resource use, has received much attention in the literature. However, few projects have successfully achieved both conservation and economic objectives. This is partly due to there being a hiatus between theory and practice, due to the absence of tools that help make the transition between conceptual frameworks and theory, to practical integration of ecosystem services into decision making. To address this hiatus, an existing conceptual framework for analyzing the robustness of social-ecological systems was translated into a practical toolkit to help understand the complexity of social-ecological systems (SES. The toolkit can be used by a diversity of stakeholders as a decision making aid for assessing ecosystem services supply and demand and associated enterprise opportunities. The toolkit is participatory and combines both a generic "top-down" scientific approach with a case-specific "bottom-up" approach. It promotes a shared understanding of the utilization of ecosystem services, which is the foundation of identifying resilient enterprises. The toolkit comprises four steps: (i ecosystem services supply and demand assessment; (ii roles identification; (iii enterprise opportunity identification; and (vi enterprise risk assessment, and was tested at two estuary study sites. Implementation of the toolkit requires the populating of preprogrammed Excel worksheets through the holding of workshops that are attended by stakeholders associated with the ecosystems. It was concluded that for an enterprise to be resilient, it must be resilient at an external SES level,which the toolkit addresses, and at an internal business functioning level, e.g., social dynamics among personnel, skills, and literacy

  5. JAVA Stereo Display Toolkit

    Science.gov (United States)

    Edmonds, Karina

    2008-01-01

    This toolkit provides a common interface for displaying graphical user interface (GUI) components in stereo using either specialized stereo display hardware (e.g., liquid crystal shutter or polarized glasses) or anaglyph display (red/blue glasses) on standard workstation displays. An application using this toolkit will work without modification in either environment, allowing stereo software to reach a wider audience without sacrificing high-quality display on dedicated hardware. The toolkit is written in Java for use with the Swing GUI Toolkit and has cross-platform compatibility. It hooks into the graphics system, allowing any standard Swing component to be displayed in stereo. It uses the OpenGL graphics library to control the stereo hardware and to perform the rendering. It also supports anaglyph and special stereo hardware using the same API (application-program interface), and has the ability to simulate color stereo in anaglyph mode by combining the red band of the left image with the green/blue bands of the right image. This is a low-level toolkit that accomplishes simply the display of components (including the JadeDisplay image display component). It does not include higher-level functions such as disparity adjustment, 3D cursor, or overlays all of which can be built using this toolkit.

  6. Integrated Systems Health Management (ISHM) Toolkit

    Science.gov (United States)

    Venkatesh, Meera; Kapadia, Ravi; Walker, Mark; Wilkins, Kim

    2013-01-01

    A framework of software components has been implemented to facilitate the development of ISHM systems according to a methodology based on Reliability Centered Maintenance (RCM). This framework is collectively referred to as the Toolkit and was developed using General Atomics' Health MAP (TM) technology. The toolkit is intended to provide assistance to software developers of mission-critical system health monitoring applications in the specification, implementation, configuration, and deployment of such applications. In addition to software tools designed to facilitate these objectives, the toolkit also provides direction to software developers in accordance with an ISHM specification and development methodology. The development tools are based on an RCM approach for the development of ISHM systems. This approach focuses on defining, detecting, and predicting the likelihood of system functional failures and their undesirable consequences.

  7. Psy Toolkit: A Novel Web-Based Method for Running Online Questionnaires and Reaction-Time Experiments

    Science.gov (United States)

    Stoet, Gijsbert

    2017-01-01

    This article reviews PsyToolkit, a free web-based service designed for setting up, running, and analyzing online questionnaires and reaction-time (RT) experiments. It comes with extensive documentation, videos, lessons, and libraries of free-to-use psychological scales and RT experiments. It provides an elaborate interactive environment to use (or…

  8. Psy Toolkit: A Novel Web-Based Method for Running Online Questionnaires and Reaction-Time Experiments

    Science.gov (United States)

    Stoet, Gijsbert

    2017-01-01

    This article reviews PsyToolkit, a free web-based service designed for setting up, running, and analyzing online questionnaires and reaction-time (RT) experiments. It comes with extensive documentation, videos, lessons, and libraries of free-to-use psychological scales and RT experiments. It provides an elaborate interactive environment to use (or…

  9. Building Emergency Contraception Awareness among Adolescents. A Toolkit for Schools and Community-Based Organizations.

    Science.gov (United States)

    Simkin, Linda; Radosh, Alice; Nelsesteun, Kari; Silverstein, Stacy

    This toolkit presents emergency contraception (EC) as a method to help adolescent women avoid pregnancy and abortion after unprotected sexual intercourse. The sections of this toolkit are designed to help increase your knowledge of EC and stay up to date. They provide suggestions for increasing EC awareness in the workplace, whether it is a school…

  10. Language Access Toolkit: An Organizing and Advocacy Resource for Community-Based Youth Programs

    Science.gov (United States)

    Beyersdorf, Mark Ro

    2013-01-01

    Asian American Legal Defense and Education Fund (AALDEF) developed this language access toolkit to share the expertise and experiences of National Asian American Education Advocates Network (NAAEA) member organizations with other community organizations interested in developing language access campaigns. This toolkit includes an overview of…

  11. The Trick Simulation Toolkit: A NASA/Opensource Framework for Running Time Based Physics Models

    Science.gov (United States)

    Penn, John M.

    2016-01-01

    The Trick Simulation Toolkit is a simulation development environment used to create high fidelity training and engineering simulations at the NASA Johnson Space Center and many other NASA facilities. Its purpose is to generate a simulation executable from a collection of user-supplied models and a simulation definition file. For each Trick-based simulation, Trick automatically provides job scheduling, numerical integration, the ability to write and restore human readable checkpoints, data recording, interactive variable manipulation, a run-time interpreter, and many other commonly needed capabilities. This allows simulation developers to concentrate on their domain expertise and the algorithms and equations of their models. Also included in Trick are tools for plotting recorded data and various other supporting utilities and libraries. Trick is written in C/C++ and Java and supports both Linux and MacOSX computer operating systems. This paper describes Trick's design and use at NASA Johnson Space Center.

  12. Advanced processing and simulation of MRS data using the FID appliance (FID-A)-An open source, MATLAB-based toolkit.

    Science.gov (United States)

    Simpson, Robin; Devenyi, Gabriel A; Jezzard, Peter; Hennessy, T Jay; Near, Jamie

    2017-01-01

    To introduce a new toolkit for simulation and processing of magnetic resonance spectroscopy (MRS) data, and to demonstrate some of its novel features. The FID appliance (FID-A) is an open-source, MATLAB-based software toolkit for simulation and processing of MRS data. The software is designed specifically for processing data with multiple dimensions (eg, multiple radiofrequency channels, averages, spectral editing dimensions). It is equipped with functions for importing data in the formats of most major MRI vendors (eg, Siemens, Philips, GE, Agilent) and for exporting data into the formats of several common processing software packages (eg, LCModel, jMRUI, Tarquin). This paper introduces the FID-A software toolkit and uses examples to demonstrate its novel features, namely 1) the use of a spectral registration algorithm to carry out useful processing routines automatically, 2) automatic detection and removal of motion-corrupted scans, and 3) the ability to perform several major aspects of the MRS computational workflow from a single piece of software. This latter feature is illustrated through both high-level processing of in vivo GABA-edited MEGA-PRESS MRS data, as well as detailed quantum mechanical simulations to generate an accurate LCModel basis set for analysis of the same data. All of the described processing steps resulted in a marked improvement in spectral quality compared with unprocessed data. Fitting of MEGA-PRESS data using a customized basis set resulted in improved fitting accuracy compared with a generic MEGA-PRESS basis set. The FID-A software toolkit enables high-level processing of MRS data and accurate simulation of in vivo MRS experiments. Magn Reson Med 77:23-33, 2017. © 2015 Wiley Periodicals, Inc. © 2015 Wiley Periodicals, Inc.

  13. EMERGO Toolkit 2.0

    NARCIS (Netherlands)

    Slootmaker, Aad; Kurvers, Hub

    2010-01-01

    Slootmaker, A., & Kurvers, H.J. (2009). EMERGO, a Java based toolkit for web based development and deployment of scenario based educational games. Heerlen, The Netherlands: Open University of the Netherlands. License: GNU General Public License

  14. Terrain-Toolkit

    DEFF Research Database (Denmark)

    Wang, Qi; Kaul, Manohar; Long, Cheng

    2014-01-01

    , as will be shown, is used heavily for query processing in spatial databases; and (3) they do not provide the surface distance operator which is fundamental for many applications based on terrain data. Motivated by this, we developed a tool called Terrain-Toolkit for terrain data which accepts a comprehensive set...

  15. Prevention literacy: community-based advocacy for access and ownership of the HIV prevention toolkit

    Directory of Open Access Journals (Sweden)

    Richard G Parker

    2016-09-01

    Full Text Available Introduction: Critical technological advances have yielded a toolkit of HIV prevention strategies. This literature review sought to provide contextual and historical reflection needed to bridge the conceptual gap between clinical efficacy and community effectiveness (i.e. knowledge and usage of existing HIV prevention options, especially in resource-poor settings. Methods: Between January 2015 and October 2015, we reviewed scholarly and grey literatures to define treatment literacy and health literacy and assess the current need for literacy related to HIV prevention. The review included searches in electronic databases including MEDLINE, PsycINFO, PubMed, and Google Scholar. Permutations of the following search terms were used: “treatment literacy,” “treatment education,” “health literacy,” and “prevention literacy.” Through an iterative process of analyses and searches, titles and/or abstracts and reference lists of retrieved articles were reviewed for additional articles, and historical content analyses of grey literature and websites were additionally conducted. Results and discussion: Treatment literacy was a well-established concept developed in the global South, which was later partially adopted by international agencies such as the World Health Organization. Treatment literacy emerged as more effective antiretroviral therapies became available. Developed from popular pedagogy and grassroots efforts during an intense struggle for treatment access, treatment literacy addressed the need to extend access to underserved communities and low-income settings that might otherwise be excluded from access. In contrast, prevention literacy is absent in the recent surge of new biomedical prevention strategies; prevention literacy was scarcely referenced and undertheorized in the available literature. Prevention efforts today include multimodal techniques, which jointly comprise a toolkit of biomedical, behavioural, and structural

  16. Prevention literacy: community-based advocacy for access and ownership of the HIV prevention toolkit

    Science.gov (United States)

    Parker, Richard G; Perez-Brumer, Amaya; Garcia, Jonathan; Gavigan, Kelly; Ramirez, Ana; Milnor, Jack; Terto, Veriano

    2016-01-01

    Introduction Critical technological advances have yielded a toolkit of HIV prevention strategies. This literature review sought to provide contextual and historical reflection needed to bridge the conceptual gap between clinical efficacy and community effectiveness (i.e. knowledge and usage) of existing HIV prevention options, especially in resource-poor settings. Methods Between January 2015 and October 2015, we reviewed scholarly and grey literatures to define treatment literacy and health literacy and assess the current need for literacy related to HIV prevention. The review included searches in electronic databases including MEDLINE, PsycINFO, PubMed, and Google Scholar. Permutations of the following search terms were used: “treatment literacy,” “treatment education,” “health literacy,” and “prevention literacy.” Through an iterative process of analyses and searches, titles and/or abstracts and reference lists of retrieved articles were reviewed for additional articles, and historical content analyses of grey literature and websites were additionally conducted. Results and discussion Treatment literacy was a well-established concept developed in the global South, which was later partially adopted by international agencies such as the World Health Organization. Treatment literacy emerged as more effective antiretroviral therapies became available. Developed from popular pedagogy and grassroots efforts during an intense struggle for treatment access, treatment literacy addressed the need to extend access to underserved communities and low-income settings that might otherwise be excluded from access. In contrast, prevention literacy is absent in the recent surge of new biomedical prevention strategies; prevention literacy was scarcely referenced and undertheorized in the available literature. Prevention efforts today include multimodal techniques, which jointly comprise a toolkit of biomedical, behavioural, and structural/environmental approaches

  17. Tribal Green Building Toolkit

    Science.gov (United States)

    This Tribal Green Building Toolkit (Toolkit) is designed to help tribal officials, community members, planners, developers, and architects develop and adopt building codes to support green building practices. Anyone can use this toolkit!

  18. BioPig: a Hadoop-based analytic toolkit for large-scale sequence data.

    Science.gov (United States)

    Nordberg, Henrik; Bhatia, Karan; Wang, Kai; Wang, Zhong

    2013-12-01

    The recent revolution in sequencing technologies has led to an exponential growth of sequence data. As a result, most of the current bioinformatics tools become obsolete as they fail to scale with data. To tackle this 'data deluge', here we introduce the BioPig sequence analysis toolkit as one of the solutions that scale to data and computation. We built BioPig on the Apache's Hadoop MapReduce system and the Pig data flow language. Compared with traditional serial and MPI-based algorithms, BioPig has three major advantages: first, BioPig's programmability greatly reduces development time for parallel bioinformatics applications; second, testing BioPig with up to 500 Gb sequences demonstrates that it scales automatically with size of data; and finally, BioPig can be ported without modification on many Hadoop infrastructures, as tested with Magellan system at National Energy Research Scientific Computing Center and the Amazon Elastic Compute Cloud. In summary, BioPig represents a novel program framework with the potential to greatly accelerate data-intensive bioinformatics analysis.

  19. A versatile toolkit for high throughput functional genomics with Trichoderma reesei

    Energy Technology Data Exchange (ETDEWEB)

    Schuster, Andre; Bruno, Kenneth S.; Collett, James R.; Baker, Scott E.; Seiboth, Bernhard; Kubicek, Christian P.; Schmoll, Monika

    2012-01-02

    The ascomycete fungus, Trichoderma reesei (anamorph of Hypocrea jecorina), represents a biotechnological workhorse and is currently one of the most proficient cellulase producers. While strain improvement was traditionally accomplished by random mutagenesis, a detailed understanding of cellulase regulation can only be gained using recombinant technologies. RESULTS: Aiming at high efficiency and high throughput methods, we present here a construction kit for gene knock out in T. reesei. We provide a primer database for gene deletion using the pyr4, amdS and hph selection markers. For high throughput generation of gene knock outs, we constructed vectors using yeast mediated recombination and then transformed a T. reesei strain deficient in non-homologous end joining (NHEJ) by spore electroporation. This NHEJ-defect was subsequently removed by crossing of mutants with a sexually competent strain derived from the parental strain, QM9414.CONCLUSIONS:Using this strategy and the materials provided, high throughput gene deletion in T. reesei becomes feasible. Moreover, with the application of sexual development, the NHEJ-defect can be removed efficiently and without the need for additional selection markers. The same advantages apply for the construction of multiple mutants by crossing of strains with different gene deletions, which is now possible with considerably less hands-on time and minimal screening effort compared to a transformation approach. Consequently this toolkit can considerably boost research towards efficient exploitation of the resources of T. reesei for cellulase expression and hence second generation biofuel production.

  20. The Trick Simulation Toolkit: A NASA/Open source Framework for Running Time Based Physics Models

    Science.gov (United States)

    Penn, John M.; Lin, Alexander S.

    2016-01-01

    This paper describes the design and use at of the Trick Simulation Toolkit, a simulation development environment for creating high fidelity training and engineering simulations at the NASA Johnson Space Center and many other NASA facilities. It describes Trick's design goals and how the development environment attempts to achieve those goals. It describes how Trick is used in some of the many training and engineering simulations at NASA. Finally it describes the Trick NASA/Open source project on Github.

  1. Prevention literacy: community-based advocacy for access and ownership of the HIV prevention toolkit

    OpenAIRE

    2016-01-01

    Introduction: Critical technological advances have yielded a toolkit of HIV prevention strategies. This literature review sought to provide contextual and historical reflection needed to bridge the conceptual gap between clinical efficacy and community effectiveness (i.e. knowledge and usage) of existing HIV prevention options, especially in resource-poor settings. Methods: Between January 2015 and October 2015, we reviewed scholarly and grey literatures to define treatment literacy and healt...

  2. The Distributed Seismological Observatory: A Web Based Seismological Data Analysis and Distribution Toolkit

    Science.gov (United States)

    Govoni, A.; Lomax, A.; Michelini, A.

    The Web now provides a single, universal infrastructure for developing client/server data access applications and the seismology community can greatly benefit of this situation both for the routine observatory data analysis and for research purposes. The Web has reduced the myriad of platforms and technologies used to handle and exchange data to a single user interface (HTML), a single client platform (the Web browser), a single network protocol (HTTP), and a single server platform (the Web server). In this context we have designed a system that taking advantage of the latest devel- opment in the client/server data access technologies based on JAVA, JAVA RMI and XML may solve the most common problems in the data access and manipulation com- monly experienced in the seismological community. Key concepts in this design are thin client approach, minimum standards for data exchange and distributed computing. Thin client means that any PC with a JAVA enabled Web browser can interact with a set of remote data servers distributed in the world computer network querying for data and for services. Minimum standards relates to the language needed for client/server interaction that must be abstract enough to avoid that everybody know all the details of the transaction and this is solved by XML. Distribution means that a set of servers is able to provide to the client not only a data object (the actual data and the methods to work on it) but also the computing power to perform a particular task (a remote method in the JAVA RMI context) and limits the exchange of data to the results. This allows for client interaction also in very limited communication bandwidth situations. We describe in detail also the implementation of the main modules of the toolkit. A data eater module that gathers/archives seismological data from a variety of sources ranging from portable digitizers data to real-time network data. A picking/location server that allows for multi user Web based analysis of

  3. Alma Data Mining Toolkit

    Science.gov (United States)

    Friedel, Douglas; Looney, Leslie; Teuben, Peter J.; Pound, Marc W.; Rauch, Kevin P.; Mundy, Lee; Harris, Robert J.; Xu, Lisa

    2016-06-01

    ADMIT (ALMA Data Mining Toolkit) is a Python based pipeline toolkit for the creation and analysis of new science products from ALMA data. ADMIT quickly provides users with a detailed overview of their science products, for example: line identifications, line 'cutout' cubes, moment maps, and emission type analysis (e.g., feature detection). Users can download the small ADMIT pipeline product (< 20MB), analyze the results, then fine-tune and re-run the ADMIT pipeline (or any part thereof) on their own machines and interactively inspect the results. ADMIT has both a web browser and command line interface available for this purpose. By analyzing multiple data cubes simultaneously, data mining between many astronomical sources and line transitions are possible. Users are also able to enhance the capabilities of ADMIT by creating customized ADMIT tasks satisfying any special processing needs. We will present some of the salient features of ADMIT and example use cases.

  4. A Toolkit for Scalable Spreadsheet Visualization

    CERN Document Server

    Clermont, Markus

    2008-01-01

    This paper presents a toolkit for spreadsheet visualization based on logical areas, semantic classes and data modules. Logical areas, semantic classes and data modules are abstract representations of spreadsheet programs that are meant to reduce the auditing and comprehension effort, especially for large and regular spreadsheets. The toolkit is integrated as a plug-in in the Gnumeric spreadsheet system for Linux. It can process large, industry scale spreadsheet programs in reasonable time and is tightly integrated with its host spreadsheet system. Users can generate hierarchical and graph-based representations of their spreadsheets. This allows them to spot conceptual similarities in different regions of the spreadsheet, that would otherwise not fit on a screen. As it is assumed that the learning effort for effective use of such a tool should be kept low, we aim for intuitive handling of most of the tool's functions.

  5. Raman spectroscopy based toolkit for mapping bacterial social interactions relevant to human and plant health

    Science.gov (United States)

    Couvillion, Sheha Polisetti

    Bacteria interact and co-exist with other microbes and with higher organisms like plants and humans, playing a major role in their health and well being. These ubiquitous single celled organisms are so successful, because they can form organized communities, called biofilms, that protect them from environmental stressors and enable communication and cooperation among members of the community. The work described in this thesis develops a toolkit of analytical techniques centered around Raman microspectroscopy and imaging representing a powerful approach to non-invasively investigate bacterial communities, yielding molecular information at the sub-micrometer length scale. Bacterial cellular components of non-pigmented and pigmented rhizosphere strains are characterized, and regiospecific SERS is used for cases where resonantly enhanced background signals obscure the spectra. Silver nanoparticle colloids were synthesized in situ, in the presence of the cells to form a proximal coating and principal component analysis (PCA) revealed features attributed to flavins. SERS enabled in situ acquisition of Raman spectra and chemical images in highly autofluorescent P.aeruginosa biofilms. In combination with PCA, this allowed for non-invasive spatial mapping of bacterial communities and revealed differences between strains and nutrients in the secretion of virulence factor pyocyanin. The rich potential of using Raman microspectroscopy to study plant-microbe interactions is demonstrated. Effect of exposure to oxidative stress, on both the wild type Pantoea sp. YR343 and carotenoid mutant Delta crtB, was assessed by following the intensity of the 1520 cm -1 and 1126 cm-1 Raman bands, respectively, after treatment with various concentrations of H2O2. Significant changes were observed in these marker bands even at concentrations (1 mM) below the point at which the traditional plate-based viability assay shows an effect (5-10 mM), thus establishing the value of Raman

  6. Plug-and-play paper-based toolkit for rapid prototyping of microfluidics and electronics towards point-of-care diagnostic solutions

    CSIR Research Space (South Africa)

    Smith, S

    2015-11-01

    Full Text Available -1 RAPDASA 2015 conference, Roodevallei, Pretoria, 4 - 6 November 2015 PLUG-AND-PLAY PAPER-BASED TOOLKIT FOR RAPID PROTOTYPING OF MICROFLUIDICS AND ELECTRONICS TOWARDS POINT-OF-CARE DIAGNOSTIC SOLUTIONS S. Smith1*, K. Moodley2 & K. Land3 1,2,3... Department of Materials Science and Manufacturing Council for Scientific and Industrial Research, South Africa 1ssmith@csir.co.za, 2kmoodley2@csir.co.za, 3kland@csir.co.za Abstract We present a plug-and-play toolkit for the rapid assembly of paper...

  7. 基于Pro/Toolkit的Creo2.0二次开发过程研究%Creo 2 .0 Secondary Development Based on Pro/Toolkit

    Institute of Scientific and Technical Information of China (English)

    程相文; 邢树雪

    2015-01-01

    This paper introduced the configuration and steps of Creo 2 .0 secondary development based on Pro/Toolkit through the study on the interface of Pro/Toolkit and Visual Studio 2010 ,and discussed the method of 3D parametric design system development in detail .%通过研究Pro/Toolkit和Visual Studio 2010接口,介绍了基于Pro/Toolkit工具包的Creo 2.0二次开发的步骤和环境的配置,详细论述了三维参数化设计系统开发的方法。

  8. TChem - A Software Toolkit for the Analysis of Complex Kinetic Models

    Energy Technology Data Exchange (ETDEWEB)

    Safta, Cosmin [Sandia National Lab. (SNL-CA), Livermore, CA (United States); Najm, Habib N. [Sandia National Lab. (SNL-CA), Livermore, CA (United States); Knio, Omar [Johns Hopkins Univ., Baltimore, MD (United States)

    2011-05-01

    The TChem toolkit is a software library that enables numerical simulations using complex chemistry and facilitates the analysis of detailed kinetic models. The toolkit provide capabilities for thermodynamic properties based on NASA polynomials and species production/consumption rates. It incorporates methods that can selectively modify reaction parameters for sensitivity analysis. The library contains several functions that provide analytically computed Jacobian matrices necessary for the efficient time advancement and analysis of detailed kinetic models.

  9. Functional characterisation of Burkholderia pseudomallei biotin protein ligase: A toolkit for anti-melioidosis drug development.

    Science.gov (United States)

    Bond, Thomas E H; Sorenson, Alanna E; Schaeffer, Patrick M

    2017-06-01

    Burkholderia pseudomallei (Bp) is the causative agent of melioidosis. The bacterium is responsible for 20% of community-acquired sepsis cases and 40% of sepsis-related mortalities in northeast Thailand, and is intrinsically resistant to aminoglycosides, macrolides, rifamycins, cephalosporins, and nonureidopenicillins. There is no vaccine and its diagnosis is problematic. Biotin protein ligase (BirA) which is essential for fatty acid synthesis has been proposed as a drug target in bacteria. Very few bacterial BirA have been characterized, and a better understanding of these enzymes is necessary to further assess their value as drug targets. BirA within the Burkholderia genus have not yet been investigated. We present for the first time the cloning, expression, purification and functional characterisation of the putative Bp BirA and orthologous B. thailandensis (Bt) biotin carboxyl carrier protein (BCCP) substrate. A GFP-tagged Bp BirA was produced and applied for the development of a high-throughput (HT) assay based on our differential scanning fluorimetry of GFP-tagged proteins (DSF-GTP) principle as well as an electrophoretic mobility shift assay. Our biochemical data in combination with the new HT DSF-GTP and biotinylation activity assay could facilitate future drug screening efforts against this drug-resistant organism. Copyright © 2017 Elsevier GmbH. All rights reserved.

  10. 77 FR 73022 - U.S. Environmental Solutions Toolkit

    Science.gov (United States)

    2012-12-07

    ... International Trade Administration U.S. Environmental Solutions Toolkit AGENCY: International Trade... web- based U.S. Environmental Solutions Toolkit to be used by foreign environmental officials and... participating in the U.S. Environmental Solutions Toolkit should self- identify by December 31, 2012, at 5:00...

  11. Implementing Project Based Survey Research Skills to Grade Six ELP Students with "The Survey Toolkit" and "TinkerPlots"[R

    Science.gov (United States)

    Walsh, Thomas, Jr.

    2011-01-01

    "Survey Toolkit Collecting Information, Analyzing Data and Writing Reports" (Walsh, 2009a) is discussed as a survey research curriculum used by the author's sixth grade students. The report describes the implementation of "The Survey Toolkit" curriculum and "TinkerPlots"[R] software to provide instruction to students learning a project based…

  12. Implementing Project Based Survey Research Skills to Grade Six ELP Students with "The Survey Toolkit" and "TinkerPlots"[R

    Science.gov (United States)

    Walsh, Thomas, Jr.

    2011-01-01

    "Survey Toolkit Collecting Information, Analyzing Data and Writing Reports" (Walsh, 2009a) is discussed as a survey research curriculum used by the author's sixth grade students. The report describes the implementation of "The Survey Toolkit" curriculum and "TinkerPlots"[R] software to provide instruction to students learning a project based…

  13. toolkit computational mesh conceptual model.

    Energy Technology Data Exchange (ETDEWEB)

    Baur, David G.; Edwards, Harold Carter; Cochran, William K.; Williams, Alan B.; Sjaardema, Gregory D.

    2010-03-01

    The Sierra Toolkit computational mesh is a software library intended to support massively parallel multi-physics computations on dynamically changing unstructured meshes. This domain of intended use is inherently complex due to distributed memory parallelism, parallel scalability, heterogeneity of physics, heterogeneous discretization of an unstructured mesh, and runtime adaptation of the mesh. Management of this inherent complexity begins with a conceptual analysis and modeling of this domain of intended use; i.e., development of a domain model. The Sierra Toolkit computational mesh software library is designed and implemented based upon this domain model. Software developers using, maintaining, or extending the Sierra Toolkit computational mesh library must be familiar with the concepts/domain model presented in this report.

  14. [Research on Three-dimensional Medical Image Reconstruction and Interaction Based on HTML5 and Visualization Toolkit].

    Science.gov (United States)

    Gao, Peng; Liu, Peng; Su, Hongsen; Qiao, Liang

    2015-04-01

    Integrating visualization toolkit and the capability of interaction, bidirectional communication and graphics rendering which provided by HTML5, we explored and experimented on the feasibility of remote medical image reconstruction and interaction in pure Web. We prompted server-centric method which did not need to download the big medical data to local connections and avoided considering network transmission pressure and the three-dimensional (3D) rendering capability of client hardware. The method integrated remote medical image reconstruction and interaction into Web seamlessly, which was applicable to lower-end computers and mobile devices. Finally, we tested this method in the Internet and achieved real-time effects. This Web-based 3D reconstruction and interaction method, which crosses over internet terminals and performance limited devices, may be useful for remote medical assistant.

  15. An Introduction to the Einstein Toolkit

    CERN Document Server

    Zilhão, Miguel

    2013-01-01

    We give an introduction to the Einstein Toolkit, a mature, open-source computational infrastructure for numerical relativity based on the Cactus Framework, for the target group of new users. This toolkit is composed of several different modules, is developed by researchers from different institutions throughout the world and is in active continuous development. Documentation for the toolkit and its several modules is often scattered across different locations, however, a difficulty new users may at times have to struggle with. Scientific papers exist describing the toolkit and its methods in detail, but they might be overwhelming at first. With these lecture notes we hope to provide an initial overview for new users. We cover how to obtain, compile and run the toolkit, and give an overview of some of the tools and modules provided with it.

  16. NAIF Toolkit - Extended

    Science.gov (United States)

    Acton, Charles H., Jr.; Bachman, Nathaniel J.; Semenov, Boris V.; Wright, Edward D.

    2010-01-01

    The Navigation Ancillary Infor ma tion Facility (NAIF) at JPL, acting under the direction of NASA s Office of Space Science, has built a data system named SPICE (Spacecraft Planet Instrument Cmatrix Events) to assist scientists in planning and interpreting scientific observations (see figure). SPICE provides geometric and some other ancillary information needed to recover the full value of science instrument data, including correlation of individual instrument data sets with data from other instruments on the same or other spacecraft. This data system is used to produce space mission observation geometry data sets known as SPICE kernels. It is also used to read SPICE kernels and to compute derived quantities such as positions, orientations, lighting angles, etc. The SPICE toolkit consists of a subroutine/ function library, executable programs (both large applications and simple utilities that focus on kernel management), and simple examples of using SPICE toolkit subroutines. This software is very accurate, thoroughly tested, and portable to all computers. It is extremely stable and reusable on all missions. Since the previous version, three significant capabilities have been added: Interactive Data Language (IDL) interface, MATLAB interface, and a geometric event finder subsystem.

  17. Ion therapy for uveal melanoma in new human eye phantom based on GEANT4 toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Mahdipour, Seyed Ali [Physics Department, Hakim Sabzevari University, Sabzevar (Iran, Islamic Republic of); Mowlavi, Ali Asghar, E-mail: amowlavi@hsu.ac.ir [Physics Department, Hakim Sabzevari University, Sabzevar (Iran, Islamic Republic of); ICTP, Associate Federation Scheme, Medical Physics Field, Trieste (Italy)

    2016-07-01

    Radiotherapy with ion beams like proton and carbon has been used for treatment of eye uveal melanoma for many years. In this research, we have developed a new phantom of human eye for Monte Carlo simulation of tumors treatment to use in GEANT4 toolkit. Total depth−dose profiles for the proton, alpha, and carbon incident beams with the same ranges have been calculated in the phantom. Moreover, the deposited energy of the secondary particles for each of the primary beams is calculated. The dose curves are compared for 47.8 MeV proton, 190.1 MeV alpha, and 1060 MeV carbon ions that have the same range in the target region reaching to the center of tumor. The passively scattered spread-out Bragg peak (SOBP) for each incident beam as well as the flux curves of the secondary particles including neutron, gamma, and positron has been calculated and compared for the primary beams. The high sharpness of carbon beam's Bragg peak with low lateral broadening is the benefit of this beam in hadrontherapy but it has disadvantages of dose leakage in the tail after its Bragg peak and high intensity of neutron production. However, proton beam, which has a good conformation with tumor shape owing to the beam broadening caused by scattering, can be a good choice for the large-size tumors.

  18. Ion therapy for uveal melanoma in new human eye phantom based on GEANT4 toolkit.

    Science.gov (United States)

    Mahdipour, Seyed Ali; Mowlavi, Ali Asghar

    2016-01-01

    Radiotherapy with ion beams like proton and carbon has been used for treatment of eye uveal melanoma for many years. In this research, we have developed a new phantom of human eye for Monte Carlo simulation of tumors treatment to use in GEANT4 toolkit. Total depth-dose profiles for the proton, alpha, and carbon incident beams with the same ranges have been calculated in the phantom. Moreover, the deposited energy of the secondary particles for each of the primary beams is calculated. The dose curves are compared for 47.8MeV proton, 190.1MeV alpha, and 1060MeV carbon ions that have the same range in the target region reaching to the center of tumor. The passively scattered spread-out Bragg peak (SOBP) for each incident beam as well as the flux curves of the secondary particles including neutron, gamma, and positron has been calculated and compared for the primary beams. The high sharpness of carbon beam׳s Bragg peak with low lateral broadening is the benefit of this beam in hadrontherapy but it has disadvantages of dose leakage in the tail after its Bragg peak and high intensity of neutron production. However, proton beam, which has a good conformation with tumor shape owing to the beam broadening caused by scattering, can be a good choice for the large-size tumors.

  19. Automated Generation of Web Services for Visualization Toolkits

    Science.gov (United States)

    Jensen, P. A.; Yuen, D. A.; Erlebacher, G.; Bollig, E. F.; Kigelman, D. G.; Shukh, E. A.

    2005-12-01

    The recent explosion in the size and complexity of geophysical data and an increasing trend for collaboration across large geographical areas demand the use of remote, full featured visualization toolkits. As the scientific community shifts toward grid computing to handle these increased demands, new web services are needed to assemble powerful distributed applications. Recent research has established the possibility of converting toolkits such as VTK [1] and Matlab [2] into remote visualization services. We are investigating an automated system to allow these toolkits to export their functions as web services under the standardized protocols SOAP and WSDL using pre-existing software (gSOAP [3]) and a custom compiler for Tcl-based scripts. The compiler uses a flexible parser and type inferring mechanism to convert the Tcl into a C++ program that allows the desired Tcl procedures to be exported as SOAP-accessible functions and the VTK rendering window to be captured offscreen and encapsulated for forwarding through a web service. Classes for a client-side Java applet to access the rendering window remotely are also generated. We will use this system to demonstrate the streamlined generation of a standards-compliant web service (suitable for grid deployment) from a Tcl script for VTK. References: [1] The Visualization Toolkit, http://www.vtk.org [2] Matlab, http://www.mathworks.com [3] gSOAP, http://www.cs.fsu.edu/~engelen/soap.html

  20. CANEGROWERS Action Research Toolkit

    NARCIS (Netherlands)

    Mostert, R.H.; Brouwer, J.H.

    2015-01-01

    This toolkit contains a selection of tools to conduct action research, organized around four phases: Identify problems and possibilities; Analyze problems and possibilities; Search for solutions; and Reflection tools. The toolkit is customized for staff of Canegrowers in South Africa, who used the t

  1. CANEGROWERS Action Research Toolkit

    NARCIS (Netherlands)

    Mostert, R.H.; Brouwer, J.H.

    2015-01-01

    This toolkit contains a selection of tools to conduct action research, organized around four phases: Identify problems and possibilities; Analyze problems and possibilities; Search for solutions; and Reflection tools. The toolkit is customized for staff of Canegrowers in South Africa, who used the

  2. Student Success Center Toolkit

    Science.gov (United States)

    Jobs For the Future, 2014

    2014-01-01

    "Student Success Center Toolkit" is a compilation of materials organized to assist Student Success Center directors as they staff, launch, operate, and sustain Centers. The toolkit features materials created and used by existing Centers, such as staffing and budgeting templates, launch materials, sample meeting agendas, and fundraising…

  3. Product Recovery About Growth Design System Based on Pro/TOOLKIT%基于Pro/TOOLKIT的生长型设计中产品反求系统

    Institute of Scientific and Technical Information of China (English)

    黄复贤

    2011-01-01

    Pro/Engineer is a 3D modeling software based on geometric model of the kernel of ACIS. That own Pro/TOOLKIT development interface and under the support of Top-Down design method. Binding functional surface,under the generalized positioning principle and growth design theory, a reverse engineering system that support innovative design was developed based on dynamic link library. In this paper, the solution process of reverse system was introduced.%Pro/Engineer是基于ACIS几何模型内核的三维造型软件,其自带Pro/TOOLKIT开发接口,并支持自顶向下设计方法.结合功能表面、广义定位及生长型设计理论,采用动态连接模式开发出支持创新设计的反求系统,详细介绍反求系统的求解过程.

  4. The MUSOS (MUsic SOftware System) Toolkit: A computer-based, open source application for testing memory for melodies.

    Science.gov (United States)

    Rainsford, M; Palmer, M A; Paine, G

    2017-04-21

    Despite numerous innovative studies, rates of replication in the field of music psychology are extremely low (Frieler et al., 2013). Two key methodological challenges affecting researchers wishing to administer and reproduce studies in music cognition are the difficulty of measuring musical responses, particularly when conducting free-recall studies, and access to a reliable set of novel stimuli unrestricted by copyright or licensing issues. In this article, we propose a solution for these challenges in computer-based administration. We present a computer-based application for testing memory for melodies. Created using the software Max/MSP (Cycling '74, 2014a), the MUSOS (Music Software System) Toolkit uses a simple modular framework configurable for testing common paradigms such as recall, old-new recognition, and stem completion. The program is accompanied by a stimulus set of 156 novel, copyright-free melodies, in audio and Max/MSP file formats. Two pilot tests were conducted to establish the properties of the accompanying stimulus set that are relevant to music cognition and general memory research. By using this software, a researcher without specialist musical training may administer and accurately measure responses from common paradigms used in the study of memory for music.

  5. An evidence-based toolkit for the development of effective and sustainable root cause analysis system safety solutions.

    Science.gov (United States)

    Hettinger, A Zachary; Fairbanks, Rollin J; Hegde, Sudeep; Rackoff, Alexandra S; Wreathall, John; Lewis, Vicki L; Bisantz, Ann M; Wears, Robert L

    2013-01-01

    Root cause analysis (RCA) after adverse events in healthcare is a standard practice at many institutions. However, healthcare has failed to see a dramatic improvement in patient safety over the last decade. In order to improve the RCA process, this study used systems safety science, which is based partly on human factors engineering principles and has been applied with success in other high-risk industries like aviation. A multi-institutional dataset of 334 RCA cases and 782 solutions was analyzed using qualitative methods. A team of safety science experts developed a model of 13 RCA solutions categories through an iterative process, using semi-structured interview data from 44 frontline staff members from 7 different hospital-based unit types. These categories were placed in a model and toolkit to help guide RCA teams in developing sustainable and effective solutions to prevent future adverse events. This study was limited by its retrospective review of cases and use of interviews rather than clinical observations. In conclusion, systems safety principles were used to develop guidelines for RCA teams to promote systems-level sustainable and effective solutions for adverse events.

  6. Measures of Analysis of Time Series (MATS: A MATLAB Toolkit for Computation of Multiple Measures on Time Series Data Bases

    Directory of Open Access Journals (Sweden)

    Dimitris Kugiumtzis

    2010-02-01

    Full Text Available In many applications, such as physiology and finance, large time series data bases are to be analyzed requiring the computation of linear, nonlinear and other measures. Such measures have been developed and implemented in commercial and freeware softwares rather selectively and independently. The Measures of Analysis of Time Series (MATS MATLAB toolkit is designed to handle an arbitrary large set of scalar time series and compute a large variety of measures on them, allowing for the specification of varying measure parameters as well. The variety of options with added facilities for visualization of the results support different settings of time series analysis, such as the detection of dynamics changes in long data records, resampling (surrogate or bootstrap tests for independence and linearity with various test statistics, and discrimination power of different measures and for different combinations of their parameters. The basic features of MATS are presented and the implemented measures are briefly described. The usefulness of MATS is illustrated on some empirical examples along with screenshots.

  7. Light-Field Imaging Toolkit

    Science.gov (United States)

    Bolan, Jeffrey; Hall, Elise; Clifford, Chris; Thurow, Brian

    The Light-Field Imaging Toolkit (LFIT) is a collection of MATLAB functions designed to facilitate the rapid processing of raw light field images captured by a plenoptic camera. An included graphical user interface streamlines the necessary post-processing steps associated with plenoptic images. The generation of perspective shifted views and computationally refocused images is supported, in both single image and animated formats. LFIT performs necessary calibration, interpolation, and structuring steps to enable future applications of this technology.

  8. TOOLKIT, Version 2. 0

    Energy Technology Data Exchange (ETDEWEB)

    Schroeder, E.; Bagot, B.; McNeill, R.L.

    1990-05-09

    The purpose of this User's Guide is to show by example many of the features of Toolkit II. Some examples will be copies of screens as they appear while running the Toolkit. Other examples will show what the user should enter in various situations; in these instances, what the computer asserts will be in boldface and what the user responds will be in regular type. The User's Guide is divided into four sections. The first section, FOCUS Databases'', will give a broad overview of the Focus administrative databases that are available on the VAX; easy-to-use reports are available for most of them in the Toolkit. The second section, Getting Started'', will cover the steps necessary to log onto the Computer Center VAX cluster and how to start Focus and the Toolkit. The third section, Using the Toolkit'', will discuss some of the features in the Toolkit -- the available reports and how to access them, as well as some utilities. The fourth section, Helpful Hints'', will cover some useful facts about the VAX and Focus as well as some of the more common problems that can occur. The Toolkit is not set in concrete but is continually being revised and improved. If you have any opinions as to changes that you would like to see made to the Toolkit or new features that you would like included, please let us know. Since we do try to respond to the needs of the user and make periodic improvement to the Toolkit, this User's Guide may not correspond exactly to what is available in the computer. In general, changes are made to provide new options or features; rarely is an existing feature deleted.

  9. SOCR Analyses - an Instructional Java Web-based Statistical Analysis Toolkit.

    Science.gov (United States)

    Chu, Annie; Cui, Jenny; Dinov, Ivo D

    2009-03-01

    The Statistical Online Computational Resource (SOCR) designs web-based tools for educational use in a variety of undergraduate courses (Dinov 2006). Several studies have demonstrated that these resources significantly improve students' motivation and learning experiences (Dinov et al. 2008). SOCR Analyses is a new component that concentrates on data modeling and analysis using parametric and non-parametric techniques supported with graphical model diagnostics. Currently implemented analyses include commonly used models in undergraduate statistics courses like linear models (Simple Linear Regression, Multiple Linear Regression, One-Way and Two-Way ANOVA). In addition, we implemented tests for sample comparisons, such as t-test in the parametric category; and Wilcoxon rank sum test, Kruskal-Wallis test, Friedman's test, in the non-parametric category. SOCR Analyses also include several hypothesis test models, such as Contingency tables, Friedman's test and Fisher's exact test.The code itself is open source (http://socr.googlecode.com/), hoping to contribute to the efforts of the statistical computing community. The code includes functionality for each specific analysis model and it has general utilities that can be applied in various statistical computing tasks. For example, concrete methods with API (Application Programming Interface) have been implemented in statistical summary, least square solutions of general linear models, rank calculations, etc. HTML interfaces, tutorials, source code, activities, and data are freely available via the web (www.SOCR.ucla.edu). Code examples for developers and demos for educators are provided on the SOCR Wiki website.In this article, the pedagogical utilization of the SOCR Analyses is discussed, as well as the underlying design framework. As the SOCR project is on-going and more functions and tools are being added to it, these resources are constantly improved. The reader is strongly encouraged to check the SOCR site for most

  10. Geant4 - A Simulation Toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Wright, Dennis H

    2002-08-09

    GEANT4 is a toolkit for simulating the passage of particles through matter. it includes a complete range of functionality including tracking, geometry, physics models and hits. The physics processes offered cover a comprehensive range, including electromagnetic, hadronic and optical processes, a large set of long-lived particles, materials and elements, over a wide energy range starting, in some cases, from 250 eV and extending in others to the TeV energy range. it has been designed and constructed to expose the physics models utilized, to handle complex geometries, and to enable its easy adaptation for optimal use in different sets of applications. The toolkit is the result of a worldwide collaboration of physicists and software engineers. It has been created exploiting software engineering and object-oriented technology and implemented in the C++ programming language. It has been used in applications in particle physics, nuclear physics, accelerator design, space engineering and medical physics.

  11. GEANT4 A Simulation toolkit

    CERN Document Server

    Agostinelli, S; Amako, K; Apostolakis, John; Araújo, H M; Arce, P; Asai, M; Axen, D A; Banerjee, S; Barrand, G; Behner, F; Bellagamba, L; Boudreau, J; Broglia, L; Brunengo, A; Chauvie, S; Chuma, J; Chytracek, R; Cooperman, G; Cosmo, G; Degtyarenko, P V; Dell'Acqua, A; De Paola, G O; Dietrich, D D; Enami, R; Feliciello, A; Ferguson, C; Fesefeldt, H S; Folger, G; Foppiano, F; Forti, A C; Garelli, S; Giani, S; Giannitrapani, R; Gibin, D; Gómez-Cadenas, J J; González, I; Gracía-Abríl, G; Greeniaus, L G; Greiner, W; Grichine, V M; Grossheim, A; Gumplinger, P; Hamatsu, R; Hashimoto, K; Hasui, H; Heikkinen, A M; Howard, A; Hutton, A M; Ivanchenko, V N; Johnson, A; Jones, F W; Kallenbach, Jeff; Kanaya, N; Kawabata, M; Kawabata, Y; Kawaguti, M; Kelner, S; Kent, P; Kodama, T; Kokoulin, R P; Kossov, M; Kurashige, H; Lamanna, E; Lampen, T; Lara, V; Lefébure, V; Lei, F; Liendl, M; Lockman, W; Longo, F; Magni, S; Maire, M; Mecking, B A; Medernach, E; Minamimoto, K; Mora de Freitas, P; Morita, Y; Murakami, K; Nagamatu, M; Nartallo, R; Nieminen, P; Nishimura, T; Ohtsubo, K; Okamura, M; O'Neale, S W; O'Ohata, Y; Perl, J; Pfeiffer, A; Pia, M G; Ranjard, F; Rybin, A; Sadilov, S; Di Salvo, E; Santin, G; Sasaki, T; Savvas, N; Sawada, Y; Scherer, S; Sei, S; Sirotenko, V I; Smith, D; Starkov, N; Stöcker, H; Sulkimo, J; Takahata, M; Tanaka, S; Chernyaev, E; Safai-Tehrani, F; Tropeano, M; Truscott, P R; Uno, H; Urbàn, L; Urban, P; Verderi, M; Walkden, A; Wander, W; Weber, H; Wellisch, J P; Wenaus, T; Williams, D C; Wright, D; Yamada, T; Yoshida, H; Zschiesche, D

    2003-01-01

    Geant4 is a toolkit for simulating the passage of particles through matter. It includes a complete range of functionality including tracking, geometry, physics models and hits. The physics processes offered cover a comprehensive range, including electromagnetic, hadronic and optical processes, a large set of long-lived particles, materials and elements, over a wide energy range starting, in some cases, from 250 eV and extending in others to the TeV energy range. It has been designed and constructed to expose the physics models utilised, to handle complex geometries, and to enable its easy adaptation for optimal use in different sets of applications. The toolkit is the result of a worldwide collaboration of physicists and software engineers. It has been created exploiting software engineering and object-oriented technology and implemented in the C++ programming language. It has been used in applications in particle physics, nuclear physics, accelerator design, space engineering and medical physics.

  12. GEANT4--a simulation toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Agostinelli, S.; Allison, J. E-mail: john.allison@man.ac.uk; Amako, K.; Apostolakis, J.; Araujo, H.; Arce, P.; Asai, M.; Axen, D.; Banerjee, S.; Barrand, G.; Behner, F.; Bellagamba, L.; Boudreau, J.; Broglia, L.; Brunengo, A.; Burkhardt, H.; Chauvie, S.; Chuma, J.; Chytracek, R.; Cooperman, G.; Cosmo, G.; Degtyarenko, P.; Dell' Acqua, A.; Depaola, G.; Dietrich, D.; Enami, R.; Feliciello, A.; Ferguson, C.; Fesefeldt, H.; Folger, G.; Foppiano, F.; Forti, A.; Garelli, S.; Giani, S.; Giannitrapani, R.; Gibin, D.; Gomez Cadenas, J.J.; Gonzalez, I.; Gracia Abril, G.; Greeniaus, G.; Greiner, W.; Grichine, V.; Grossheim, A.; Guatelli, S.; Gumplinger, P.; Hamatsu, R.; Hashimoto, K.; Hasui, H.; Heikkinen, A.; Howard, A.; Ivanchenko, V.; Johnson, A.; Jones, F.W.; Kallenbach, J.; Kanaya, N.; Kawabata, M.; Kawabata, Y.; Kawaguti, M.; Kelner, S.; Kent, P.; Kimura, A.; Kodama, T.; Kokoulin, R.; Kossov, M.; Kurashige, H.; Lamanna, E.; Lampen, T.; Lara, V.; Lefebure, V.; Lei, F.; Liendl, M.; Lockman, W.; Longo, F.; Magni, S.; Maire, M.; Medernach, E.; Minamimoto, K.; Mora de Freitas, P.; Morita, Y.; Murakami, K.; Nagamatu, M.; Nartallo, R.; Nieminen, P.; Nishimura, T.; Ohtsubo, K.; Okamura, M.; O' Neale, S.; Oohata, Y.; Paech, K.; Perl, J.; Pfeiffer, A.; Pia, M.G.; Ranjard, F.; Rybin, A.; Sadilov, S.; Di Salvo, E.; Santin, G.; Sasaki, T.; Savvas, N.; Sawada, Y.; Scherer, S.; Sei, S.; Sirotenko, V.; Smith, D.; Starkov, N.; Stoecker, H.; Sulkimo, J.; Takahata, M.; Tanaka, S.; Tcherniaev, E.; Safai Tehrani, E.; Tropeano, M.; Truscott, P.; Uno, H.; Urban, L.; Urban, P.; Verderi, M.; Walkden, A.; Wander, W.; Weber, H.; Wellisch, J.P.; Wenaus, T.; Williams, D.C.; Wright, D.; Yamada, T.; Yoshida, H.; Zschiesche, D

    2003-07-01

    GEANT4 is a toolkit for simulating the passage of particles through matter. It includes a complete range of functionality including tracking, geometry, physics models and hits. The physics processes offered cover a comprehensive range, including electromagnetic, hadronic and optical processes, a large set of long-lived particles, materials and elements, over a wide energy range starting, in some cases, from 250 eV and extending in others to the TeV energy range. It has been designed and constructed to expose the physics models utilised, to handle complex geometries, and to enable its easy adaptation for optimal use in different sets of applications. The toolkit is the result of a worldwide collaboration of physicists and software engineers. It has been created exploiting software engineering and object-oriented technology and implemented in the C++ programming language. It has been used in applications in particle physics, nuclear physics, accelerator design, space engineering and medical physics.

  13. RGtk2: A Graphical User Interface Toolkit for R

    Directory of Open Access Journals (Sweden)

    Duncan Temple Lang

    2011-01-01

    Full Text Available Graphical user interfaces (GUIs are growing in popularity as a complement or alternative to the traditional command line interfaces to R. RGtk2 is an R package for creating GUIs in R. The package provides programmatic access to GTK+ 2.0, an open-source GUI toolkit written in C. To construct a GUI, the R programmer calls RGtk2 functions that map to functions in the underlying GTK+ library. This paper introduces the basic concepts underlying GTK+ and explains how to use RGtk2 to construct GUIs from R. The tutorial is based on simple and pratical programming examples. We also provide more complex examples illustrating the advanced features of the package. The design of the RGtk2 API and the low-level interface from R to GTK+ are discussed at length. We compare RGtk2 to alternative GUI toolkits for R.

  14. A Web-based Multi-user Interactive Visualization System For Large-Scale Computing Using Google Web Toolkit Technology

    Science.gov (United States)

    Weiss, R. M.; McLane, J. C.; Yuen, D. A.; Wang, S.

    2009-12-01

    We have created a web-based, interactive system for multi-user collaborative visualization of large data sets (on the order of terabytes) that allows users in geographically disparate locations to simultaneous and collectively visualize large data sets over the Internet. By leveraging asynchronous java and XML (AJAX) web development paradigms via the Google Web Toolkit (http://code.google.com/webtoolkit/), we are able to provide remote, web-based users a web portal to LCSE's (http://www.lcse.umn.edu) large-scale interactive visualization system already in place at the University of Minnesota that provides high resolution visualizations to the order of 15 million pixels by Megan Damon. In the current version of our software, we have implemented a new, highly extensible back-end framework built around HTTP "server push" technology to provide a rich collaborative environment and a smooth end-user experience. Furthermore, the web application is accessible via a variety of devices including netbooks, iPhones, and other web- and javascript-enabled cell phones. New features in the current version include: the ability for (1) users to launch multiple visualizations, (2) a user to invite one or more other users to view their visualization in real-time (multiple observers), (3) users to delegate control aspects of the visualization to others (multiple controllers) , and (4) engage in collaborative chat and instant messaging with other users within the user interface of the web application. We will explain choices made regarding implementation, overall system architecture and method of operation, and the benefits of an extensible, modular design. We will also discuss future goals, features, and our plans for increasing scalability of the system which includes a discussion of the benefits potentially afforded us by a migration of server-side components to the Google Application Engine (http://code.google.com/appengine/).

  15. Tripal v1.1: a standards-based toolkit for construction of online genetic and genomic databases.

    Science.gov (United States)

    Sanderson, Lacey-Anne; Ficklin, Stephen P; Cheng, Chun-Huai; Jung, Sook; Feltus, Frank A; Bett, Kirstin E; Main, Dorrie

    2013-01-01

    Tripal is an open-source freely available toolkit for construction of online genomic and genetic databases. It aims to facilitate development of community-driven biological websites by integrating the GMOD Chado database schema with Drupal, a popular website creation and content management software. Tripal provides a suite of tools for interaction with a Chado database and display of content therein. The tools are designed to be generic to support the various ways in which data may be stored in Chado. Previous releases of Tripal have supported organisms, genomic libraries, biological stocks, stock collections and genomic features, their alignments and annotations. Also, Tripal and its extension modules provided loaders for commonly used file formats such as FASTA, GFF, OBO, GAF, BLAST XML, KEGG heir files and InterProScan XML. Default generic templates were provided for common views of biological data, which could be customized using an open Application Programming Interface to change the way data are displayed. Here, we report additional tools and functionality that are part of release v1.1 of Tripal. These include (i) a new bulk loader that allows a site curator to import data stored in a custom tab delimited format; (ii) full support of every Chado table for Drupal Views (a powerful tool allowing site developers to construct novel displays and search pages); (iii) new modules including 'Feature Map', 'Genetic', 'Publication', 'Project', 'Contact' and the 'Natural Diversity' modules. Tutorials, mailing lists, download and set-up instructions, extension modules and other documentation can be found at the Tripal website located at http://tripal.info. DATABASE URL: http://tripal.info/.

  16. Hydropower RAPID Toolkit

    Energy Technology Data Exchange (ETDEWEB)

    2016-12-01

    This fact sheet provides a brief overview of the U.S. Department of Energy (DOE) Hydropower Regulatory and Permitting Information Desktop (RAPID) Toolkit including its capabilities, features, and benefits.

  17. Energy Conservation Behaviour Toolkit

    NARCIS (Netherlands)

    Kalz, Marco; Börner, Dirk; Ternier, Stefaan; Specht, Marcus

    2013-01-01

    Kalz, M., Börner, D., Ternier, S., & Specht, M. (2013, 31 January). Energy Conservation Behaviour Toolkit. Presentation given at the symposium "Groene ICT en Duurzame ontwikkeling: Meters maken in het Hoger Onderwijs", Driebergen, The Netherlands.

  18. Emergency care toolkits.

    Science.gov (United States)

    Black, Steven

    2004-06-01

    Emergency care services are the focus of a series of toolkits developed by the NHS National electronic Library for Health to provide resources for emergency care leads and others involved in modernising emergency care, writes Steven Black.

  19. Wildlife crossings toolkit

    OpenAIRE

    2005-01-01

    Many highways wind their way through excellent wildlife habitat. Florida’s highways slice through rare black bear habitat. Alaska struggles with moose-vehicle collisions. Grizzly bears in the northern Rockies are killed on highways or avoid crossing them, limiting them to smaller areas. Solutions are available, but the information is widely scattered. The Wildlife Crossings Toolkit gathers information in one location on proven solutions and lessons learned. Who can use the toolkit? Profession...

  20. CaGrid workflow toolkit: A taverna based workflow tool for cancer grid

    OpenAIRE

    Sulakhe Dinanath; Soiland-Reyes Stian; Nenadic Alexandra; Madduri Ravi; Tan Wei; Foster Ian; Goble Carole A

    2010-01-01

    Abstract Background In biological and medical domain, the use of web services made the data and computation functionality accessible in a unified manner, which helped automate the data pipeline that was previously performed manually. Workflow technology is widely used in the orchestration of multiple services to facilitate in-silico research. Cancer Biomedical Informatics Grid (caBIG) is an information network enabling the sharing of cancer research related resources and caGrid is its underly...

  1. Renewable Energy Cost Modeling. A Toolkit for Establishing Cost-Based Incentives in the United States

    Energy Technology Data Exchange (ETDEWEB)

    Gifford, Jason S. [Sustainable Energy Advantage, LLC, Framington, MA (United States); Grace, Robert C. [Sustainable Energy Advantage, LLC, Framington, MA (United States); Rickerson, Wilson H. [Meister Consultants Group, Inc., Boston, MA (United States)

    2011-05-01

    This report serves as a resource for policymakers who wish to learn more about levelized cost of energy (LCOE) calculations, including cost-based incentives. The report identifies key renewable energy cost modeling options, highlights the policy implications of choosing one approach over the other, and presents recommendations on the optimal characteristics of a model to calculate rates for cost-based incentives, FITs, or similar policies. These recommendations shaped the design of NREL's Cost of Renewable Energy Spreadsheet Tool (CREST), which is used by state policymakers, regulators, utilities, developers, and other stakeholders to assist with analyses of policy and renewable energy incentive payment structures. Authored by Jason S. Gifford and Robert C. Grace of Sustainable Energy Advantage LLC and Wilson H. Rickerson of Meister Consultants Group, Inc.

  2. CLIMLAB: a Python-based software toolkit for interactive, process-oriented climate modeling

    Science.gov (United States)

    Rose, B. E. J.

    2015-12-01

    Global climate is a complex emergent property of the rich interactions between simpler components of the climate system. We build scientific understanding of this system by breaking it down into component process models (e.g. radiation, large-scale dynamics, boundary layer turbulence), understanding each components, and putting them back together. Hands-on experience and freedom to tinker with climate models (whether simple or complex) is invaluable for building physical understanding. CLIMLAB is an open-ended software engine for interactive, process-oriented climate modeling. With CLIMLAB you can interactively mix and match model components, or combine simpler process models together into a more comprehensive model. It was created primarily to support classroom activities, using hands-on modeling to teach fundamentals of climate science at both undergraduate and graduate levels. CLIMLAB is written in Python and ties in with the rich ecosystem of open-source scientific Python tools for numerics and graphics. The IPython notebook format provides an elegant medium for distributing interactive example code. I will give an overview of the current capabilities of CLIMLAB, the curriculum we have developed thus far, and plans for the future. Using CLIMLAB requires some basic Python coding skills. We consider this an educational asset, as we are targeting upper-level undergraduates and Python is an increasingly important language in STEM fields. However CLIMLAB is well suited to be deployed as a computational back-end for a graphical gaming environment based on earth-system modeling.

  3. Designing and Delivering Intensive Interventions: A Teacher's Toolkit

    Science.gov (United States)

    Murray, Christy S.; Coleman, Meghan A.; Vaughn, Sharon; Wanzek, Jeanne; Roberts, Greg

    2012-01-01

    This toolkit provides activities and resources to assist practitioners in designing and delivering intensive interventions in reading and mathematics for K-12 students with significant learning difficulties and disabilities. Grounded in research, this toolkit is based on the Center on Instruction's "Intensive Interventions for Students Struggling…

  4. Autism Speaks Toolkits: Resources for Busy Physicians.

    Science.gov (United States)

    Bellando, Jayne; Fussell, Jill J; Lopez, Maya

    2016-02-01

    Given the increased prevalence of autism spectrum disorders (ASD), it is likely that busy primary care providers (PCP) are providing care to individuals with ASD in their practice. Autism Speaks provides a wealth of educational, medical, and treatment/intervention information resources for PCPs and families, including at least 32 toolkits. This article serves to familiarize PCPs and families on the different toolkits that are available on the Autism Speaks website. This article is intended to increase physicians' knowledge on the issues that families with children with ASD frequently encounter, to increase their ability to share evidence-based information to guide treatment and care for affected families in their practice.

  5. The Einstein Toolkit: A Community Computational Infrastructure for Relativistic Astrophysics

    CERN Document Server

    Löffler, Frank; Bentivegna, Eloisa; Bode, Tanja; Diener, Peter; Haas, Roland; Hinder, Ian; Mundim, Bruno C; Ott, Christian D; Schnetter, Erik; Allen, Gabrielle; Campanelli, Manuela; Laguna, Pablo

    2011-01-01

    We describe the Einstein Toolkit, a community-driven, freely accessible computational infrastructure intended for use in numerical relativity, relativistic astrophysics, and other applications. The Toolkit, developed by a collaboration involving researchers from multiple institutions around the world, combines a core set of components needed to simulate astrophysical objects such as black holes, compact objects, and collapsing stars, as well as a full suite of analysis tools. The Einstein Toolkit is currently based on the Cactus Framework for high-performance computing and the Carpet adaptive mesh refinement driver. It implements spacetime evolution via the BSSN evolution system and general-relativistic hydrodynamics in a finite-volume discretization. The toolkit is under continuous development and contains many new code components that have been publicly released for the first time and are described in this article. We discuss the motivation behind the release of the toolkit, the philosophy underlying its de...

  6. On Parametric Design of Computer Chassis Components Based on Pro/Toolkit%基于 Pro/Toolkit 的专用计算机机箱零部件参数化设计的研究

    Institute of Scientific and Technical Information of China (English)

    刘晓雯

    2015-01-01

    The author of this paper,who has conducted a parametric design of computer chassis components with Pro/Toolkit of Pro/E,describes the basic steps and key technologies involved, and demonstrate that the software development kit of three-dimensional design software can be employed for the parametric design of component parameters.%利用 Pro/E 的二次开发工具 Pro/Toolkit 对专用计算机机箱零部件进行了参数化设计,阐述了基本步骤和关键技术,说明基于三维设计软件的二次开发功能可以很好地实现产品零部件的参数化设计。

  7. Newnes electronics toolkit

    CERN Document Server

    Phillips, Geoff

    2013-01-01

    Newnes Electronics Toolkit brings together fundamental facts, concepts, and applications of electronic components and circuits, and presents them in a clear, concise, and unambiguous format, to provide a reference book for engineers. The book contains 10 chapters that discuss the following concepts: resistors, capacitors, inductors, semiconductors, circuit concepts, electromagnetic compatibility, sound, light, heat, and connections. The engineer's job does not end when the circuit diagram is completed; the design for the manufacturing process is just as important if volume production is to be

  8. A toolkit and robust pipeline for the generation of fosmid-based reporter genes in C. elegans.

    Directory of Open Access Journals (Sweden)

    Baris Tursun

    Full Text Available Engineering fluorescent proteins into large genomic clones, contained within BACs or fosmid vectors, is a tool to visualize and study spatiotemporal gene expression patterns in transgenic animals. Because these reporters cover large genomic regions, they most likely capture all cis-regulatory information and can therefore be expected to recapitulate all aspects of endogenous gene expression. Inserting tags at the target gene locus contained within genomic clones by homologous recombination ("recombineering" represents the most straightforward method to generate these reporters. In this methodology paper, we describe a simple and robust pipeline for recombineering of fosmids, which we apply to generate reporter constructs in the nematode C. elegans, whose genome is almost entirely covered in an available fosmid library. We have generated a toolkit that allows for insertion of fluorescent proteins (GFP, YFP, CFP, VENUS, mCherry and affinity tags at specific target sites within fosmid clones in a virtually seamless manner. Our new pipeline is less complex and, in our hands, works more robustly than previously described recombineering strategies to generate reporter fusions for C. elegans expression studies. Furthermore, our toolkit provides a novel recombineering cassette which inserts a SL2-spliced intercistronic region between the gene of interest and the fluorescent protein, thus creating a reporter controlled by all 5' and 3' cis-acting regulatory elements of the examined gene without the direct translational fusion between the two. With this configuration, the onset of expression and tissue specificity of secreted, sub-cellular compartmentalized or short-lived gene products can be easily detected. We describe other applications of fosmid recombineering as well. The simplicity, speed and robustness of the recombineering pipeline described here should prompt the routine use of this strategy for expression studies in C. elegans.

  9. Development and evaluation of an RN/RPN utilization toolkit.

    Science.gov (United States)

    Blastorah, Margaret; Alvarado, Kim; Duhn, Lenora; Flint, Frances; McGrath, Petrina; Vandevelde-Coke, Susan

    2010-05-01

    To develop and evaluate a toolkit for Registered Nurse/Registered Practical Nurse (RN/RPN) staff mix decision-making based on the College of Nurses of Ontario's practice standard for utilization of RNs and RPNs. Descriptive exploratory. The toolkit was tested in a sample of 2,069 inpatients on 36 medical/surgical units in five academic and two community acute care hospitals in southern Ontario. Survey and focus group data were used to evaluate the toolkit's psychometric properties, feasibility of use and utility. Results support the validity and reliability of the Patient Care Needs Assessment (PCNA) tool and the consensus-based process for conducting patient care reviews. Review participants valued the consensus approach. There was limited evidence for the validity and utility of the Unit Environmental Profile (UEP) tool. Nursing unit leaders reported confidence in planning unit staff mix ratios based on information generated through application of the toolkit, specifically the PCNA, although they were less clear about how to incorporate environmental data into staff mix decisions. Results confirm that the toolkit consistently measured the constructs that it was intended to measure and was useful in informing RN/RPN staff mix decision-making. Further refinement and testing of the UEP is required. Future research is needed to evaluate the quality of decisions resulting from the application of the toolkit, illuminate processes for integrating data into decisions and adapt the toolkit for application in other sectors.

  10. The Bio* toolkits--a brief overview.

    Science.gov (United States)

    Mangalam, Harry

    2002-09-01

    Bioinformatics research is often difficult to do with commercial software. The Open Source BioPerl, BioPython and Biojava projects provide toolkits with multiple functionality that make it easier to create customised pipelines or analysis. This review briefly compares the quirks of the underlying languages and the functionality, documentation, utility and relative advantages of the Bio counterparts, particularly from the point of view of the beginning biologist programmer.

  11. Flightspeed Integral Image Analysis Toolkit

    Science.gov (United States)

    Thompson, David R.

    2009-01-01

    The Flightspeed Integral Image Analysis Toolkit (FIIAT) is a C library that provides image analysis functions in a single, portable package. It provides basic low-level filtering, texture analysis, and subwindow descriptor for applications dealing with image interpretation and object recognition. Designed with spaceflight in mind, it addresses: Ease of integration (minimal external dependencies) Fast, real-time operation using integer arithmetic where possible (useful for platforms lacking a dedicated floatingpoint processor) Written entirely in C (easily modified) Mostly static memory allocation 8-bit image data The basic goal of the FIIAT library is to compute meaningful numerical descriptors for images or rectangular image regions. These n-vectors can then be used directly for novelty detection or pattern recognition, or as a feature space for higher-level pattern recognition tasks. The library provides routines for leveraging training data to derive descriptors that are most useful for a specific data set. Its runtime algorithms exploit a structure known as the "integral image." This is a caching method that permits fast summation of values within rectangular regions of an image. This integral frame facilitates a wide range of fast image-processing functions. This toolkit has applicability to a wide range of autonomous image analysis tasks in the space-flight domain, including novelty detection, object and scene classification, target detection for autonomous instrument placement, and science analysis of geomorphology. It makes real-time texture and pattern recognition possible for platforms with severe computational restraints. The software provides an order of magnitude speed increase over alternative software libraries currently in use by the research community. FIIAT can commercially support intelligent video cameras used in intelligent surveillance. It is also useful for object recognition by robots or other autonomous vehicles

  12. Creation of an SWMM Toolkit for Its Application in Urban Drainage Networks Optimization

    Directory of Open Access Journals (Sweden)

    F. Javier Martínez-Solano

    2016-06-01

    Full Text Available The Storm Water Management Model (SWMM is a dynamic simulation engine of flow in sewer systems developed by the USEPA. It has been successfully used for analyzing and designing both storm water and waste water systems. However, despite including some interfacing functions, these functions are insufficient for certain simulations. This paper describes some new functions that have been added to the existing ones to form a library of functions (Toolkit. The Toolkit presented here will allow the direct modification of network data during simulation without the need to access the input file. To support the use of this library, a testing protocol was performed in order to evaluate both calculation time and accuracy of results. Finally, a case study is presented. In this application, this library will be used for the design of a sewerage network by using a genetic algorithm based on successive iterations.

  13. The DLESE Evaluation Toolkit Project

    Science.gov (United States)

    Buhr, S. M.; Barker, L. J.; Marlino, M.

    2002-12-01

    criteria and process for ensuring that the site contains robust and useful resources has been drafted and received initial feedback from the project advisory board, which consists of members of every segment of the target audience. The review criteria are based upon DLESE peer review criteria, the MERLOT digital library peer review criteria, digital resource evaluation criteria, and evaluation best practices. In geoscience education, as in most endeavors, improvements are made by asking questions and acting upon information about successes and failures; project evaluation can be thought of as the systematic process of asking these questions and gathering the right information. The Evaluation Toolkit seeks to help principal investigators, teachers, and evaluators use the evaluation process to improve our projects and our field.

  14. The MIS Pipeline Toolkit

    Science.gov (United States)

    Teuben, Peter J.; Pound, M. W.; Storm, S.; Mundy, L. G.; Salter, D. M.; Lee, K.; Kwon, W.; Fernandez Lopez, M.; Plunkett, A.

    2013-01-01

    A pipeline toolkit was developed to help organizing, reducing and analyzing a large number of near-identical datasets. This is a very general problem, for which many different solutions have been implemented. In this poster we present one such solution that lends itself to users of the Unix command line, using the Unix "make" utility, and adapts itself easily to observational as well as theoretical projects. Two examples are given, one from the CARMA CLASSy survey, and another from a simulated kinematic survey of early galaxy forming disks. The CLASSy survey (discussed in more detail in three accompanying posters) consists of 5 different star forming regions, observed with CARMA, each containing roughly 10-20 datasets in continuum and 3 different molecular lines, that need to be combined in final data cubes and maps. The strength of such a pipeline toolkit shows itself as new data are accumulated, the data reduction steps are improved and easily re-applied to previously taken data. For this we employed a master script that was run nightly, and collaborators submitted improved script and/or pipeline parameters that control these scripts. MIS is freely available for download.

  15. NNCTRL - a CANCSD toolkit for MATLAB(R)

    DEFF Research Database (Denmark)

    Nørgård, Peter Magnus; Ravn, Ole; Poulsen, Niels Kjølstad

    1996-01-01

    A set of tools for computer-aided neuro-control system design (CANCSD) has been developed for the MATLAB environment. The tools can be used for construction and simulation of a variety of neural network based control systems. The design methods featured in the toolkit are: direct inverse control,......, internal model control, feedforward, feedback linearization, optimal control, instantaneous linearization, and nonlinear predictive control. Furthermore, the toolkit has been given a flexible design which allows for incorporation of the user's personal control algorithms...

  16. A flexible open-source toolkit for lava flow simulations

    Science.gov (United States)

    Mossoux, Sophie; Feltz, Adelin; Poppe, Sam; Canters, Frank; Kervyn, Matthieu

    2014-05-01

    Lava flow hazard modeling is a useful tool for scientists and stakeholders confronted with imminent or long term hazard from basaltic volcanoes. It can improve their understanding of the spatial distribution of volcanic hazard, influence their land use decisions and improve the city evacuation during a volcanic crisis. Although a range of empirical, stochastic and physically-based lava flow models exists, these models are rarely available or require a large amount of physical constraints. We present a GIS toolkit which models lava flow propagation from one or multiple eruptive vents, defined interactively on a Digital Elevation Model (DEM). It combines existing probabilistic (VORIS) and deterministic (FLOWGO) models in order to improve the simulation of lava flow spatial spread and terminal length. Not only is this toolkit open-source, running in Python, which allows users to adapt the code to their needs, but it also allows users to combine the models included in different ways. The lava flow paths are determined based on the probabilistic steepest slope (VORIS model - Felpeto et al., 2001) which can be constrained in order to favour concentrated or dispersed flow fields. Moreover, the toolkit allows including a corrective factor in order for the lava to overcome small topographical obstacles or pits. The lava flow terminal length can be constrained using a fixed length value, a Gaussian probability density function or can be calculated based on the thermo-rheological properties of the open-channel lava flow (FLOWGO model - Harris and Rowland, 2001). These slope-constrained properties allow estimating the velocity of the flow and its heat losses. The lava flow stops when its velocity is zero or the lava temperature reaches the solidus. Recent lava flows of Karthala volcano (Comoros islands) are here used to demonstrate the quality of lava flow simulations with the toolkit, using a quantitative assessment of the match of the simulation with the real lava flows. The

  17. Einstein Toolkit for Relativistic Astrophysics

    Science.gov (United States)

    Collaborative Effort

    2011-02-01

    The Einstein Toolkit is a collection of software components and tools for simulating and analyzing general relativistic astrophysical systems. Such systems include gravitational wave space-times, collisions of compact objects such as black holes or neutron stars, accretion onto compact objects, core collapse supernovae and Gamma-Ray Bursts. The Einstein Toolkit builds on numerous software efforts in the numerical relativity community including CactusEinstein, Whisky, and Carpet. The Einstein Toolkit currently uses the Cactus Framework as the underlying computational infrastructure that provides large-scale parallelization, general computational components, and a model for collaborative, portable code development.

  18. The Interactive Learning Toolkit: supporting interactive classrooms

    Science.gov (United States)

    Dutta, S.; McCauley, V.; Mazur, E.

    2004-05-01

    Research-based interactive learning techniques have dramatically improved student understanding. We have created the 'Interactive Learning Toolkit' (ILT), a web-based learning management system, to help implement two such pedagogies: Just in Time Teaching and Peer Instruction. Our main goal in developing this toolkit is to save the instructor time and effort and to use technology to facilitate the interaction between the students and the instructor (and between students themselves). After a brief review of both pedagogies, we will demonstrate the many exciting new features of the ILT. We will show how technology can not only implement, but also supplement and improve these pedagogies. We would like acknowdge grants from NSF and DEAS, Harvard University

  19. Information from Searching Content with an Ontology-Utilizing Toolkit (iSCOUT).

    Science.gov (United States)

    Lacson, Ronilda; Andriole, Katherine P; Prevedello, Luciano M; Khorasani, Ramin

    2012-08-01

    Radiology reports are permanent legal documents that serve as official interpretation of imaging tests. Manual analysis of textual information contained in these reports requires significant time and effort. This study describes the development and initial evaluation of a toolkit that enables automated identification of relevant information from within these largely unstructured text reports. We developed and made publicly available a natural language processing toolkit, Information from Searching Content with an Ontology-Utilizing Toolkit (iSCOUT). Core functions are included in the following modules: the Data Loader, Header Extractor, Terminology Interface, Reviewer, and Analyzer. The toolkit enables search for specific terms and retrieval of (radiology) reports containing exact term matches as well as similar or synonymous term matches within the text of the report. The Terminology Interface is the main component of the toolkit. It allows query expansion based on synonyms from a controlled terminology (e.g., RadLex or National Cancer Institute Thesaurus [NCIT]). We evaluated iSCOUT document retrieval of radiology reports that contained liver cysts, and compared precision and recall with and without using NCIT synonyms for query expansion. iSCOUT retrieved radiology reports with documented liver cysts with a precision of 0.92 and recall of 0.96, utilizing NCIT. This recall (i.e., utilizing the Terminology Interface) is significantly better than using each of two search terms alone (0.72, p=0.03 for liver cyst and 0.52, p=0.0002 for hepatic cyst). iSCOUT reliably assembled relevant radiology reports for a cohort of patients with liver cysts with significant improvement in document retrieval when utilizing controlled lexicons.

  20. Adolescent Relationship Abuse (ARA) Toolkit

    Data.gov (United States)

    U.S. Department of Health & Human Services — The Adolescent Relationship Abuse (ARA) Toolkit provides information and strategies on how to: incorporate abuse prevention into programming; conduct staff training;...

  1. Skills Labs: workshop EMERGO toolkit

    NARCIS (Netherlands)

    Kurvers, Hub; Slootmaker, Aad

    2009-01-01

    Kurvers, H. J., & Slootmaker, A. (2009). Skills Labs: workshop EMERGO toolkit. Presentation given at project members of Skills Labs. March, 31, 2009 and April, 24, 2009, Heerlen, The Netherlands: Open University of the Netherlands.

  2. The Lean and Environment Toolkit

    Science.gov (United States)

    This Lean and Environment Toolkit assembles practical experience collected by the U.S. Environmental Protection Agency (EPA) and partner companies and organizations that have experience with coordinating Lean implementation and environmental management.

  3. INTELMOD - An Intelligent Satellite Modelling Toolkit

    Science.gov (United States)

    Aynsley, M.; Hiden, H.

    This paper describes the development of an intelligent, generic spacecraft modelling toolkit, INTELMOD (INTELligent MODeller). The system has been designed to provide an environment which can efficiently capture spacecraft engineering and operational expertise, coupled with mission or phase-related knowledge. This knowledge can then be applied to support human flight controllers at ESA (European Space Agency) in performing a number of generic monitoring, analytical and diagnostic tasks. INTELMOD has been developed using a RAD (Rapid Application Development) approach, based on the Dynamic Systems Development Methodology (DSDM) and has made extensive use of Commercial Off-The-Shelf (COTS) software products. INTELMOD also incorporates UNiT (Universal Intelligent Toolkit), to provide automatic execution of recovery procedures following fault detection and isolation. Users of INTELMOD require no formal programming experience, as models can be constructed with user-friendly editors that employ a “drag and drop” approach using pre- defined palettes of key components.

  4. Observation option toolkit for acute otitis media.

    Science.gov (United States)

    Rosenfeld, R M

    2001-04-01

    The observation option for acute otitis media (AOM) refers to deferring antibiotic treatment of selected children for up to 3 days, during which time management is limited to analgesics and symptomatic relief. With appropriate follow-up complications are not increased, and clinical outcomes compare favorably with routine initial antibiotic therapy. Although used commonly in the Netherlands and certain Scandinavian countries, this approach has not gained wide acceptance in Europe and the United States. This article describes an evidence-based toolkit developed by the New York Region Otitis Project for judicious use of the observation option. The toolkit is not intended to endorse the observation option as a preferred method of management, nor is it intended as a rigid practice guideline to supplant clinician judgement. Rather, it presents busy clinicians with the tools needed to implement the observation option in everyday patient care should they so desire.

  5. Business/Employers Influenza Toolkit

    Centers for Disease Control (CDC) Podcasts

    2011-09-06

    This podcast promotes the "Make It Your Business To Fight The Flu" toolkit for Businesses and Employers. The toolkit provides information and recommended strategies to help businesses and employers promote the seasonal flu vaccine. Additionally, employers will find flyers, posters, and other materials to post and distribute in the workplace.  Created: 9/6/2011 by Office of Infectious Diseases, Office of the Director (OD).   Date Released: 9/7/2011.

  6. Globus Toolkit Version 4: Software for Service-Oriented Systems

    Institute of Scientific and Technical Information of China (English)

    Ian Foster

    2006-01-01

    The Globus Toolkit (GT) has been developed since the late 1990s to support the development of serviceoriented distributed computing applications and infrastructures. Core GT components address, within a common framework,fundamental issues relating to security, resource access, resource management, data movement, resource discovery, and so forth. These components enable a broader "Globus ecosystem" of tools and components that build on, or interoperate with,GT functionality to provide a wide range of useful application-level functions. These tools have in turn been used to develop a wide range of both "Grid" infrastructures and distributed applications. I summarize here the principal characteristics of the recent Web Services-based GT4 release, which provides significant improvements over previous releases in terms of robustness, performance, usability, documentation, standards compliance, and functionality. I also introduce the new "dev.globus" community development process, which allows a larger community to contribute to the development of Globus software.

  7. 基于Java的面向对象交互式图形工具箱%Java-based Object-oriented Interactive Graphics Toolkit

    Institute of Scientific and Technical Information of China (English)

    刘庆芳; 华庆一; 李光俊; 芦宏亮; 蔚娣

    2009-01-01

    为在开发交互式图形应用过程中有效地建立、表示和管理代表应用数据的直接操作图形对象,设计一个基于Java的面向对象交互式图形工具箱--JOOIGT,该工具箱利用面向对象技术和Java基本类库,提供多种图形对象以及图形界面框架,使设计者只需定义对象,而不必考虑绘图细节,简化操作流程,利用JOOIGT建立的图形界面不仅可以运行于本地窗13程序中,也能运行在Web程序或嵌入式程序中.%In order to set up, show, and manage the direct manipulation graph objects representative of application data effectively in development of interactive graphics application, a Java-based object-oriented interactive graphics toolkit called JOOIGT is designed. It uses object-oriented technique and Java foundation classes to provide a set of graphic objects and framework supporting user interface, which makes the developers only need to define objects without considering the detail of drawing, The operating process is simplified. The user interfaces based on JOOIGT can not only run in the widow application, but also run in Web application or embedded application.

  8. AlignerBoost: A Generalized Software Toolkit for Boosting Next-Gen Sequencing Mapping Accuracy Using a Bayesian-Based Mapping Quality Framework.

    Directory of Open Access Journals (Sweden)

    Qi Zheng

    2016-10-01

    Full Text Available Accurate mapping of next-generation sequencing (NGS reads to reference genomes is crucial for almost all NGS applications and downstream analyses. Various repetitive elements in human and other higher eukaryotic genomes contribute in large part to ambiguously (non-uniquely mapped reads. Most available NGS aligners attempt to address this by either removing all non-uniquely mapping reads, or reporting one random or "best" hit based on simple heuristics. Accurate estimation of the mapping quality of NGS reads is therefore critical albeit completely lacking at present. Here we developed a generalized software toolkit "AlignerBoost", which utilizes a Bayesian-based framework to accurately estimate mapping quality of ambiguously mapped NGS reads. We tested AlignerBoost with both simulated and real DNA-seq and RNA-seq datasets at various thresholds. In most cases, but especially for reads falling within repetitive regions, AlignerBoost dramatically increases the mapping precision of modern NGS aligners without significantly compromising the sensitivity even without mapping quality filters. When using higher mapping quality cutoffs, AlignerBoost achieves a much lower false mapping rate while exhibiting comparable or higher sensitivity compared to the aligner default modes, therefore significantly boosting the detection power of NGS aligners even using extreme thresholds. AlignerBoost is also SNP-aware, and higher quality alignments can be achieved if provided with known SNPs. AlignerBoost's algorithm is computationally efficient, and can process one million alignments within 30 seconds on a typical desktop computer. AlignerBoost is implemented as a uniform Java application and is freely available at https://github.com/Grice-Lab/AlignerBoost.

  9. The MPI Bioinformatics Toolkit for protein sequence analysis.

    Science.gov (United States)

    Biegert, Andreas; Mayer, Christian; Remmert, Michael; Söding, Johannes; Lupas, Andrei N

    2006-07-01

    The MPI Bioinformatics Toolkit is an interactive web service which offers access to a great variety of public and in-house bioinformatics tools. They are grouped into different sections that support sequence searches, multiple alignment, secondary and tertiary structure prediction and classification. Several public tools are offered in customized versions that extend their functionality. For example, PSI-BLAST can be run against regularly updated standard databases, customized user databases or selectable sets of genomes. Another tool, Quick2D, integrates the results of various secondary structure, transmembrane and disorder prediction programs into one view. The Toolkit provides a friendly and intuitive user interface with an online help facility. As a key feature, various tools are interconnected so that the results of one tool can be forwarded to other tools. One could run PSI-BLAST, parse out a multiple alignment of selected hits and send the results to a cluster analysis tool. The Toolkit framework and the tools developed in-house will be packaged and freely available under the GNU Lesser General Public Licence (LGPL). The Toolkit can be accessed at http://toolkit.tuebingen.mpg.de.

  10. Capacity Building Indicators & Dissemination Strategies: Designing and Delivering Intensive Interventions--A Teacher's Toolkit

    Science.gov (United States)

    Center on Instruction, 2012

    2012-01-01

    This toolkit provides activities and resources to assist practitioners in designing and delivering intensive interventions in reading and mathematics for K-12 students with significant learning difficulties and disabilities. Grounded in research, this toolkit is based on the Center on Instruction's "Intensive Interventions for Students Struggling…

  11. Comparison of open-source visual analytics toolkits

    Science.gov (United States)

    Harger, John R.; Crossno, Patricia J.

    2012-01-01

    We present the results of the first stage of a two-stage evaluation of open source visual analytics packages. This stage is a broad feature comparison over a range of open source toolkits. Although we had originally intended to restrict ourselves to comparing visual analytics toolkits, we quickly found that very few were available. So we expanded our study to include information visualization, graph analysis, and statistical packages. We examine three aspects of each toolkit: visualization functions, analysis capabilities, and development environments. With respect to development environments, we look at platforms, language bindings, multi-threading/parallelism, user interface frameworks, ease of installation, documentation, and whether the package is still being actively developed.

  12. Enabling Dynamic Process Simulators to Perform Alternative Tasks: A Time-stepper Based Toolkit for Computer-Aided Analysis

    OpenAIRE

    Siettos, C. I.; Pantelides, C. C.; Kevrekidis, I.G.

    2003-01-01

    We discuss computational superstructures that, using repeated, appropriately initialized short calls, enable temporal process simulators to perform alternative tasks such as fixed point computation, stability analysis and projective integration. We illustrate these concepts through the acceleration of a gPROMS-based Rapid Pressure Swing Adsorption simulation, and discuss their scope and possible extensions.

  13. The Image-Guided Surgery ToolKit IGSTK: an open source C++ software toolkit

    Science.gov (United States)

    Cheng, Peng; Ibanez, Luis; Gobbi, David; Gary, Kevin; Aylward, Stephen; Jomier, Julien; Enquobahrie, Andinet; Zhang, Hui; Kim, Hee-su; Blake, M. Brian; Cleary, Kevin

    2007-03-01

    The Image-Guided Surgery Toolkit (IGSTK) is an open source C++ software library that provides the basic components needed to develop image-guided surgery applications. The focus of the toolkit is on robustness using a state machine architecture. This paper presents an overview of the project based on a recent book which can be downloaded from igstk.org. The paper includes an introduction to open source projects, a discussion of our software development process and the best practices that were developed, and an overview of requirements. The paper also presents the architecture framework and main components. This presentation is followed by a discussion of the state machine model that was incorporated and the associated rationale. The paper concludes with an example application.

  14. Creation of an SWMM Toolkit for Its Application in Urban Drainage Networks Optimization

    OpenAIRE

    2016-01-01

    The Storm Water Management Model (SWMM) is a dynamic simulation engine of flow in sewer systems developed by the USEPA. It has been successfully used for analyzing and designing both storm water and waste water systems. However, despite including some interfacing functions, these functions are insufficient for certain simulations. This paper describes some new functions that have been added to the existing ones to form a library of functions (Toolkit). The Toolkit presented her...

  15. Renewable Energy Cost Modeling: A Toolkit for Establishing Cost-Based Incentives in the United States; March 2010 -- March 2011

    Energy Technology Data Exchange (ETDEWEB)

    Gifford, J. S.; Grace, R. C.; Rickerson, W. H.

    2011-05-01

    This report is intended to serve as a resource for policymakers who wish to learn more about establishing cost-based incentives. The report will identify key renewable energy cost modeling options, highlight the policy implications of choosing one approach over the other, and present recommendations on the optimal characteristics of a model to calculate rates for cost-based incentives, feed-in tariffs (FITs), or similar policies. These recommendations will be utilized in designing the Cost of Renewable Energy Spreadsheet Tool (CREST). Three CREST models will be publicly available and capable of analyzing the cost of energy associated with solar, wind, and geothermal electricity generators. The CREST models will be developed for use by state policymakers, regulators, utilities, developers, and other stakeholders to assist them in current and future rate-setting processes for both FIT and other renewable energy incentive payment structures and policy analyses.

  16. explICU: A web-based visualization and predictive modeling toolkit for mortality in intensive care patients.

    Science.gov (United States)

    Chen, Robert; Kumar, Vikas; Fitch, Natalie; Jagadish, Jitesh; Lifan Zhang; Dunn, William; Duen Horng Chau

    2015-01-01

    Preventing mortality in intensive care units (ICUs) has been a top priority in American hospitals. Predictive modeling has been shown to be effective in prediction of mortality based upon data from patients' past medical histories from electronic health records (EHRs). Furthermore, visualization of timeline events is imperative in the ICU setting in order to quickly identify trends in patient histories that may lead to mortality. With the increasing adoption of EHRs, a wealth of medical data is becoming increasingly available for secondary uses such as data exploration and predictive modeling. While data exploration and predictive modeling are useful for finding risk factors in ICU patients, the process is time consuming and requires a high level of computer programming ability. We propose explICU, a web service that hosts EHR data, displays timelines of patient events based upon user-specified preferences, performs predictive modeling in the back end, and displays results to the user via intuitive, interactive visualizations.

  17. Designing evidence and theory-based ICT tools for weight loss maintenance: the H2020 NoHoW toolkit

    Directory of Open Access Journals (Sweden)

    Marta M Marques

    2015-11-01

    Conclusion: This presentation will provide an overview of the process of development of the NoHoW TK focusing on the foundations, the TK content, and the results from a pilot user-testing and will be discussing the contribution of a systematic approach to the development of ICT solutions based on theory, evidence, and user-testing, to the advancement of the science of behavior change and implementation of sustainable solutions to WLM across Europe.

  18. An Extended Design of the "Grid-Enabled SEE++ System" Based on Globus Toolkit 4 and gLite Conference

    CERN Document Server

    Schreiner, W.; Buchberger, M.; Kaltofen, T.

    2006-01-01

    "Grid-Enabled SEE++" based on the SEE++ software system for the biomechanical 3D simulation of the human eye and its muscles. SEE++ simulates the common eye muscle surgery techniques in a graphic interactive way that is familiar to an experienced surgeon. The goal of "Grid-Enabled SEE++" is to adapt and to extend SEE++ in several steps and to develop an efficient grid-based tool for "Evidence Based Medicine", which supports the surgeons in choosing optimal surgery techniques for the treatments of different syndromes of strabismus. In our previous work, we combined the SEE++ software with the Globus (pre-Web Service) middleware and developed a parallel version of the simulation of the "Hess-Lancaster test" (typical medical examination). By this, we demonstrated how a noticeable speedup can be achieved in SEE++ by the exploitation of the computational power of the Grid. Furthermore, we reported the prototype implementation of a medical database component for "Grid-Enabled SEE++". Finally, we designed a so calle...

  19. Build an Assistive Technology Toolkit

    Science.gov (United States)

    Ahrens, Kelly

    2011-01-01

    Assistive technology (AT) by its very nature consists of a variety of personal and customized tools for multiple learning styles and physical challenges. The author not only encourages students, parents, and educators to advocate for AT services, she also wants them to go a step further and build their own AT toolkits that can instill independence…

  20. A Toolkit for Teacher Engagement

    Science.gov (United States)

    Grantmakers for Education, 2014

    2014-01-01

    Teachers are critical to the success of education grantmaking strategies, yet in talking with them we discovered that the world of philanthropy is often a mystery. GFE's Toolkit for Teacher Engagement aims to assist funders in authentically and effectively involving teachers in the education reform and innovation process. Built directly from the…

  1. GENFIT - a Generic Track-Fitting Toolkit

    CERN Document Server

    Rauch, Johannes

    2014-01-01

    GENFIT is an experiment-independent track-fitting toolkit that combines fitting algorithms, track representations, and measurement geometries into a modular framework. We report on a significantly improved version of GENFIT, based on experience gained in the Belle II, PANDA, and FOPI experiments. Improvements concern the implementation of additional track-fitting algorithms, enhanced implementations of Kalman fitters, enhanced visualization capabilities, and additional implementations of measurement types suited for various kinds of tracking detectors. The data model has been revised, allowing for efficient track merging, smoothing, residual calculation, alignment, and storage.

  2. GENFIT - a generic track-fitting toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Rauch, Johannes [Technische Universitaet Muenchen (Germany); Schlueter, Tobias [Ludwig-Maximilians-Universitaet Muenchen (Germany)

    2014-07-01

    GENFIT is an experiment-independent track-fitting toolkit, which combines fitting algorithms, track representations, and measurement geometries into a modular framework. We report on a significantly improved version of GENFIT, based on experience gained in the Belle II, PANDA, and FOPI experiments. Improvements concern the implementation of additional track-fitting algorithms, enhanced implementations of Kalman fitters, enhanced visualization capabilities, and additional implementations of measurement types suited for various kinds of tracking detectors. The data model has been revised, allowing for efficient track merging, smoothing, residual calculation and alignment.

  3. Design Optimization Toolkit: Users' Manual

    Energy Technology Data Exchange (ETDEWEB)

    Aguilo Valentin, Miguel Alejandro [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States). Computational Solid Mechanics and Structural Dynamics

    2014-07-01

    The Design Optimization Toolkit (DOTk) is a stand-alone C++ software package intended to solve complex design optimization problems. DOTk software package provides a range of solution methods that are suited for gradient/nongradient-based optimization, large scale constrained optimization, and topology optimization. DOTk was design to have a flexible user interface to allow easy access to DOTk solution methods from external engineering software packages. This inherent flexibility makes DOTk barely intrusive to other engineering software packages. As part of this inherent flexibility, DOTk software package provides an easy-to-use MATLAB interface that enables users to call DOTk solution methods directly from the MATLAB command window.

  4. Graph algorithms in the titan toolkit.

    Energy Technology Data Exchange (ETDEWEB)

    McLendon, William Clarence, III; Wylie, Brian Neil

    2009-10-01

    Graph algorithms are a key component in a wide variety of intelligence analysis activities. The Graph-Based Informatics for Non-Proliferation and Counter-Terrorism project addresses the critical need of making these graph algorithms accessible to Sandia analysts in a manner that is both intuitive and effective. Specifically we describe the design and implementation of an open source toolkit for doing graph analysis, informatics, and visualization that provides Sandia with novel analysis capability for non-proliferation and counter-terrorism.

  5. Research on package vessels CAD/CAM system based on Pro/TOOLKIT%基于Pro/TOOLKIT的包装容器CAD/CAM系统研究

    Institute of Scientific and Technical Information of China (English)

    和克智; 刘晓利; 林家骐

    2006-01-01

    以Pro/Engineer为二次开发平台,利用其二次开发工具Pro/TOOLKIT,在Visual C++6.0编程平台上,开发出了一个塑料瓶及其吹塑模具的三维参数化CAD/CAM系统,提供了一种开发包装CAD/CAM软件的方法.

  6. The design of common parametric modify module based on Pro/Toolkit%基于Pro/Toolkit的通用参数修改模块的设计

    Institute of Scientific and Technical Information of China (English)

    陈勇将; 徐幼林

    2010-01-01

    目前常见的参数设计二次开发只能针对具体的零件,没有通用性与灵活性,零件变化时就必须重新开发.利用Pro/E的二次开发工具Pro/Toolkit,结合VC开发出能够适应任何零件的通用参数修改模块.

  7. Physiologically based pharmacokinetic toolkit to evaluate environmental exposures: Applications of the dioxin model to study real life exposures.

    Science.gov (United States)

    Emond, Claude; Ruiz, Patricia; Mumtaz, Moiz

    2017-01-15

    Chlorinated dibenzo-p-dioxins (CDDs) are a series of mono- to octa-chlorinated homologous chemicals commonly referred to as polychlorinated dioxins. One of the most potent, well-known, and persistent member of this family is 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD). As part of translational research to make computerized models accessible to health risk assessors, we present a Berkeley Madonna recoded version of the human physiologically based pharmacokinetic (PBPK) model used by the U.S. Environmental Protection Agency (EPA) in the recent dioxin assessment. This model incorporates CYP1A2 induction, which is an important metabolic vector that drives dioxin distribution in the human body, and it uses a variable elimination half-life that is body burden dependent. To evaluate the model accuracy, the recoded model predictions were compared with those of the original published model. The simulations performed with the recoded model matched well with those of the original model. The recoded model was then applied to available data sets of real life exposure studies. The recoded model can describe acute and chronic exposures and can be useful for interpreting human biomonitoring data as part of an overall dioxin and/or dioxin-like compounds risk assessment. Copyright © 2016. Published by Elsevier Inc.

  8. Toolkit - South Africa's good waste management practices: lessons learned

    CSIR Research Space (South Africa)

    Afrika, M

    2010-02-01

    Full Text Available practices are to be found. This paper reports on the development of a Toolkit for municipal waste management service delivery, based on some of the good waste management practices currently implemented in different municipalities across all the categories...

  9. 77 FR 73023 - U.S. Environmental Solutions Toolkit

    Science.gov (United States)

    2012-12-07

    ... International Trade Administration U.S. Environmental Solutions Toolkit AGENCY: International Trade... compressors. The Department of Commerce continues to develop the web- based U.S. Environmental Solutions... environmental issue outlined above that are interested in participating in the U.S. Environmental...

  10. Simulation toolkit with CMOS detector in the framework of hadrontherapy

    Directory of Open Access Journals (Sweden)

    Rescigno R.

    2014-03-01

    Full Text Available Proton imaging can be seen as a powerful technique for on-line monitoring of ion range during carbon ion therapy irradiation. The protons detection technique uses, as three-dimensional tracking system, a set of CMOS sensor planes. A simulation toolkit based on GEANT4 and ROOT is presented including detector response and reconstruction algorithm.

  11. Simulation toolkit with CMOS detector in the framework of hadrontherapy

    Science.gov (United States)

    Rescigno, R.; Finck, Ch.; Juliani, D.; Baudot, J.; Dauvergne, D.; Dedes, G.; Krimmer, J.; Ray, C.; Reithinger, V.; Rousseau, M.; Testa, E.; Winter, M.

    2014-03-01

    Proton imaging can be seen as a powerful technique for on-line monitoring of ion range during carbon ion therapy irradiation. The protons detection technique uses, as three-dimensional tracking system, a set of CMOS sensor planes. A simulation toolkit based on GEANT4 and ROOT is presented including detector response and reconstruction algorithm.

  12. Parametric Modeling of Gear Hob Based on Pro/Toolkit%基于Pro/Toolkit的齿轮滚刀的参数化建模

    Institute of Scientific and Technical Information of China (English)

    何超; 周后明

    2011-01-01

    Through the secondary development tool of Pro/Engineer called Pro/Program, parameterized modeling of the gear hob is realized. In Pro/Toolkit for secondary development platform,combining VS2005 programming environment,parameterized modeling system of the gear hob is developed. This system has many advantages, such as visual and friendly interface of the dialog box.When using,only need to enter some basic parameters to create the 3D models. This system brings great convenience to the gear hob 3d modeling work,and illustrates that the Pro/Toolkit can improve the design efficiency and reduces product development cycle.%利用Pro/Engineer 的二次开发工具Pro/Program实现齿轮滚刀的参数化建模.为建立一个完整的参数化的齿轮滚刀建模系统,以Pro/Toolkit为二次开发平台,结合VS2005的编程环境,完成其系统的设计.该齿轮滚刀建模系统的特点是具有直观、清晰的对话框界面,在运用时只需输入一些基本参数,就可以生成相对应的三维模型;该建模系统对于齿轮滚刀的三维建模工作的开发和研究意义重大.运用Pro/Toolkit,不仅可以提高设计效率,又可以缩短产品研发的周期.

  13. Research on the Process of Parametric Design Based on Pro/TOOLKIT Software%基于Pro/TOOLKIT的Pro/E参数化设计

    Institute of Scientific and Technical Information of China (English)

    刘文强; 胡夏夏; 宋士刚

    2011-01-01

    Pro/E is one of the most wide-used software which has the strong 3d modeling and simulation analysis and so on. Aiming at the general machinery and standard parts which are the same except the dimensions, Pro/E provides an API-Pro/TOOLKIT to shorten the time of designing. This paper was about the compile of the source file, through dynamic link store the compile and connection of the program, the registeration and run of the program by Visual C + + and Pro/ TOOLKIT through DLL, and it also described the whole process of the parametric design, finally an example was given out to prove the method. [ Ch,4 fig. 10 ref. ]%Pro/E是应用非常广的一款软件,它提供了强大的三维造型、模拟分析等能力,并针对结构基本相同、只是尺寸有所差别的通用机械和标准零件等,Pro/E开发了Pro/TOOLKIT这一客户化开发工具包,以节省逐一进行建模所浪费的大量时间.文章利用VC++和Pro/TOOLKIT,通过动态链接库方式,完成源文件的编写、程序的编译和连接以及程序的注册和运行,详尽叙述了整个参数化的设计过程,并最后以1个实例进行了验证.

  14. Further Develop Pro/E by Pro/TOOLKIT Based on VC%在VC环境下利用Pro/TOOLKIT对Pro/E进行二次开发

    Institute of Scientific and Technical Information of China (English)

    吴卓; 丁志磊; 赵国霞

    2006-01-01

    目前我国Pro/E应用日益普及,而二次开发严重滞后,论文介绍了其二次开发工具Pro/TOOLKIT,并针对Pro/TOOLKIT开发对话框较困难,提出利用动态链接库实现了在Pro/E中调用MFC对话框,给出了实现方案和齿轮参数化设计的编程实例.

  15. Applications Toolkit for Accelerator Control and Analysis

    Science.gov (United States)

    Borland, M.

    1997-05-01

    The Advanced Photon Source (APS) has taken a unique approach to creating high-level software applications for accelerator control and analysis. The approach is based on self-describing data, modular program toolkits, and scripts. Self-describing data provides a communication standard that aids the creation of modular program toolkits by allowing compliant programs to be used in essentially arbitrary combinations. These modular programs can be used as part of an arbitrary number of high-level applications. At APS, a group of about 60 data analysis, manipulation, and display tools is used in concert with about 20 control-system-specific tools to implement applications for commissioning and operations. High-level applications are created using scripts, which are relatively simple interpreted programs. The Tcl/Tk script language is used, allowing creation of graphical user interfaces (GUIs) and a library of algorithms that are separate from the interface. This allows greater automation of control by making it easy to take the human out of the loop. Applications of this methodology to accelerator commissioning and operation such as orbit correction, and data archiving and review will be discussed.

  16. Drug Dosing Toolkit

    Science.gov (United States)

    ... Care Apply Online Application Process Veteran Eligibility Active Duty Families of Veterans Women Veterans Determine Costs Copays ... Vets Performance Based Interviewing Clinical Trainees (Academic Affiliations) Employees & Contractors Talent Management System (TMS) VA Learning University ( ...

  17. Overview and Meteorological Validation of the Wind Integration National Dataset toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Draxl, C. [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Hodge, B. M. [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Clifton, A. [National Renewable Energy Laboratory (NREL), Golden, CO (United States); McCaa, J. [3TIER by VAisala, Seattle, WA (United States)

    2015-04-13

    The Wind Integration National Dataset (WIND) Toolkit described in this report fulfills these requirements, and constitutes a state-of-the-art national wind resource data set covering the contiguous United States from 2007 to 2013 for use in a variety of next-generation wind integration analyses and wind power planning. The toolkit is a wind resource data set, wind forecast data set, and wind power production and forecast data set derived from the Weather Research and Forecasting (WRF) numerical weather prediction model. WIND Toolkit data are available online for over 116,000 land-based and 10,000 offshore sites representing existing and potential wind facilities.

  18. Experience with a distributed control system toolkit in a batch application; Erfahrungen mit einem Prozessleitsystem Toolkit in einer Batch-Anwendung

    Energy Technology Data Exchange (ETDEWEB)

    Eisenbach, B. [Bayer AG, Leverkusen (Germany); Hennecke, H. [Lang und Peitler Automation GmbH, Leverkusen (Germany)

    1999-07-01

    At Bayer AG structured automation solutions have been implemented for years on Simatic S5 systems using a software specially developed for this purpose. Due to the benefits gained during implementation and especially during commissioning as well as due to the uniform documentation, this structure was transferred to the new Siemens distributed control system PCS7 in form of the Bayer S7 ToolKit. The S7 ToolKit has been applied successfully in various projects. The following article describes the application of the Bayer S7 ToolKit with regard to basic functions and batch applications. (orig.) [German] Bei der Bayer AG wird seit Jahren eine strukturierte Automatisierung bei Simatic S5-Projekten mit einem eigens dafuer entwickelten Softwaresystem realisiert. Durch die positiven Erfahrungen sowohl in der Projektierung, der vereinfachten Inbetriebnahme und der einheitlichen Dokumentation wurde diese Struktur auch auf das neue Siemens-Prozessleitsystem PCS7 in Form des S7 ToolKits uebetragen. In einer Reihe von Projekten wurde das Bayer S7 ToolKit schon angewendet. Im folgenden wird ueber den Einsatz des ToolKits in Verbindung mit Grundfunktions-Fahrweisen und einer Batch-Anwendung berichtet. (orig.)

  19. Introducing the Ginga FITS Viewer and Toolkit

    Science.gov (United States)

    Jeschke, E.; Inagaki, T.; Kackley, R.

    2013-10-01

    We introduce Ginga, a new open-source FITS viewer and toolkit based on Python astronomical packages such as pyfits, numpy, scipy, matplotlib, and pywcs. For developers, we present a set of Python classes for viewing FITS files under the modern Gtk and Qt widget sets and a more full-featured viewer that has a plugin architecture. We further describe how plugins can be written to extend the viewer with many different capabilities. The software may be of interest to software developers who are looking for a solution for integrating FITS visualization into their Python programs and end users interested in a new and different FITS viewer that is not based on Tcl/Tk widget technology. The software has been released under a BSD license.

  20. VIDE: The Void IDentification and Examination toolkit

    CERN Document Server

    Sutter, P M; Hamaus, Nico; Pisani, Alice; Wandelt, Benjamin D; Warren, Michael S; Villaescusa-Navarro, Francisco; Zivick, Paul; Mao, Qingqing; Thompson, Benjamin B

    2014-01-01

    We present VIDE, the Void IDentification and Examination toolkit, an open-source Python/C++ code for finding cosmic voids in galaxy redshift surveys and N-body simulations, characterizing their properties, and providing a platform for more detailed analysis. At its core, VIDE uses a greatly enhanced version of ZOBOV (Neyinck 2008) to calculate a Voronoi tessellation for estimating the density field and a watershed transform to construct voids. The watershed levels are used to place voids in a hierarchical tree. VIDE provides significant additional functionality for both pre- and post-processing: for example, VIDE can work with volume- or magnitude-limited galaxy samples with arbitrary survey geometries, or dark matter particles or halo catalogs in a variety of common formats. It can also randomly subsample inputs and includes a Halo Occupation Distribution model for constructing mock galaxy populations. VIDE outputs a summary of void properties in plain ASCII, and provides a Python API to perform many analysi...

  1. Introduction to the Geant4 Simulation toolkit

    Science.gov (United States)

    Guatelli, S.; Cutajar, D.; Oborn, B.; Rosenfeld, A. B.

    2011-05-01

    Geant4 is a Monte Carlo simulation Toolkit, describing the interactions of particles with matter. Geant4 is widely used in radiation physics research, from High Energy Physics, to medical physics and space science, thanks to its sophisticated physics component, coupled with advanced functionality in geometry description. Geant4 is widely used at the Centre for Medical Radiation Physics (CMRP), at the University of Wollongong, to characterise and optimise novel detector concepts, radiotherapy treatments, and imaging solutions. This lecture consists of an introduction to Monte Carlo method, and to Geant4. Particular attention will be devoted to the Geant4 physics component, and to the physics models describing electromagnetic and hadronic physics interactions. The second part of the lecture will be focused on the methodology to adopt to develop a Geant4 simulation application.

  2. Wetland Resources Action Planning (WRAP) toolkit

    DEFF Research Database (Denmark)

    Bunting, Stuart W.; Smith, Kevin G.; Lund, Søren

    2013-01-01

    The Wetland Resources Action Planning (WRAP) toolkit is a toolkit of research methods and better management practices used in HighARCS (Highland Aquatic Resources Conservation and Sustainable Development), an EU-funded project with field experiences in China, Vietnam and India. It aims...

  3. The REACH Youth Program Learning Toolkit

    Science.gov (United States)

    Sierra Health Foundation, 2011

    2011-01-01

    Believing in the value of using video documentaries and data as learning tools, members of the REACH technical assistance team collaborated to develop this toolkit. The learning toolkit was designed using and/or incorporating components of the "Engaging Youth in Community Change: Outcomes and Lessons Learned from Sierra Health Foundation's…

  4. Liaison Officer Toolkit

    Science.gov (United States)

    2010-01-01

    capability including general, orthopedic , thoracic, urological, gynecological, and oral maxillofacial, based on 6 operating room tables staffed for 96...beds • 45 ward/holding beds • Blood bank capacity of 400 frozen blood units • FFP and walking blood bank • Full dental facilities • Orthopedics ...activated in the event of a disaster. The teams are comprised of individuals with diverse expertise to include veterinarians , animal health technicians

  5. Linear systems toolkit in Matlab:structural decompositions and their applicationss

    Institute of Scientific and Technical Information of China (English)

    Xinmin LIU; Ben M.CHEN; Zongli LIN

    2005-01-01

    This paper presents a brief description of the software toolbox,linear systems toolkit,developed in Matlab environment.The toolkit contains 66 m-functions,including structural decompositions of linear autonomous systems,unforced/unsensed systems,proper systems,and singular systems,along with their applications to system factorizations,sensor/actuator selection, H-two and H-infinity control,and disturbance decoupling problems.

  6. The Data Warehouse Lifecycle Toolkit

    CERN Document Server

    Kimball, Ralph; Thornthwaite, Warren; Mundy, Joy; Becker, Bob

    2011-01-01

    A thorough update to the industry standard for designing, developing, and deploying data warehouse and business intelligence systemsThe world of data warehousing has changed remarkably since the first edition of The Data Warehouse Lifecycle Toolkit was published in 1998. In that time, the data warehouse industry has reached full maturity and acceptance, hardware and software have made staggering advances, and the techniques promoted in the premiere edition of this book have been adopted by nearly all data warehouse vendors and practitioners. In addition, the term "business intelligence" emerge

  7. Penetration Tester's Open Source Toolkit

    CERN Document Server

    Faircloth, Jeremy

    2011-01-01

    Great commercial penetration testing tools can be very expensive and sometimes hard to use or of questionable accuracy. This book helps solve both of these problems. The open source, no-cost penetration testing tools presented do a great job and can be modified by the user for each situation. Many tools, even ones that cost thousands of dollars, do not come with any type of instruction on how and in which situations the penetration tester can best use them. Penetration Tester's Open Source Toolkit, Third Edition, expands upon existing instructions so that a professional can get the most accura

  8. agriGO: a GO analysis toolkit for the agricultural community.

    Science.gov (United States)

    Du, Zhou; Zhou, Xin; Ling, Yi; Zhang, Zhenhai; Su, Zhen

    2010-07-01

    Gene Ontology (GO), the de facto standard in gene functionality description, is used widely in functional annotation and enrichment analysis. Here, we introduce agriGO, an integrated web-based GO analysis toolkit for the agricultural community, using the advantages of our previous GO enrichment tool (EasyGO), to meet analysis demands from new technologies and research objectives. EasyGO is valuable for its proficiency, and has proved useful in uncovering biological knowledge in massive data sets from high-throughput experiments. For agriGO, the system architecture and website interface were redesigned to improve performance and accessibility. The supported organisms and gene identifiers were substantially expanded (including 38 agricultural species composed of 274 data types). The requirement on user input is more flexible, in that user-defined reference and annotation are accepted. Moreover, a new analysis approach using Gene Set Enrichment Analysis strategy and customizable features is provided. Four tools, SEA (Singular enrichment analysis), PAGE (Parametric Analysis of Gene set Enrichment), BLAST4ID (Transfer IDs by BLAST) and SEACOMPARE (Cross comparison of SEA), are integrated as a toolkit to meet different demands. We also provide a cross-comparison service so that different data sets can be compared and explored in a visualized way. Lastly, agriGO functions as a GO data repository with search and download functions; agriGO is publicly accessible at http://bioinfo.cau.edu.cn/agriGO/.

  9. Admit: Alma Data Mining Toolkit

    Science.gov (United States)

    Friedel, Douglas; Looney, Leslie; Xu, Lisa; Pound, Marc W.; Teuben, Peter J.; Rauch, Kevin P.; Mundy, Lee; Kern, Jeffrey S.

    2015-06-01

    ADMIT (ALMA Data Mining Toolkit) is a toolkit for the creation and analysis of new science products from ALMA data. ADMIT is an ALMA Development Project written purely in Python. While specifically targeted for ALMA science and production use after the ALMA pipeline, it is designed to be generally applicable to radio-astronomical data. ADMIT quickly provides users with a detailed overview of their science products: line identifications, line 'cutout' cubes, moment maps, emission type analysis (e.g., feature detection), etc. Users can download the small ADMIT pipeline product (<20MB), analyze the results, then fine-tune and re-run the ADMIT pipeline (or any part thereof) on their own machines and interactively inspect the results. ADMIT will have both a GUI and command line interface available for this purpose. By analyzing multiple data cubes simultaneously, data mining between many astronomical sources and line transitions will be possible. Users will also be able to enhance the capabilities of ADMIT by creating customized ADMIT tasks satisfying any special processing needs. Future implementations of ADMIT may include EVLA and other instruments.

  10. The SCRAM tool-kit

    Science.gov (United States)

    Tamir, David; Flanigan, Lee A.; Weeks, Jack L.; Siewert, Thomas A.; Kimbrough, Andrew G.; McClure, Sidney R.

    1994-01-01

    This paper proposes a new series of on-orbit capabilities to support the near-term Hubble Space Telescope, Extended Duration Orbiter, Long Duration Orbiter, Space Station Freedom, other orbital platforms, and even the future manned Lunar/Mars missions. These proposed capabilities form a toolkit termed Space Construction, Repair, and Maintenance (SCRAM). SCRAM addresses both intra-Vehicular Activity (IVA) and Extra-Vehicular Activity (EVA) needs. SCRAM provides a variety of tools which enable welding, brazing, cutting, coating, heating, and cleaning, as well as corresponding nondestructive examination. Near-term IVA-SCRAM applications include repair and modification to fluid lines, structure, and laboratory equipment inside a shirt-sleeve environment (i.e. inside Spacelab or Space Station). Near-term EVA-SCRAM applications include construction of fluid lines and structural members, repair of punctures by orbital debris, refurbishment of surfaces eroded by contaminants. The SCRAM tool-kit also promises future EVA applications involving mass production tasks automated by robotics and artificial intelligence, for construction of large truss, aerobrake, and nuclear reactor shadow shields structures. The leading candidate tool processes for SCRAM, currently undergoing research and development, include Electron Beam, Gas Tungsten Arc, Plasma Arc, and Laser Beam. A series of strategic space flight experiments would make SCRAM available to help conquer the space frontier.

  11. [A biomedical signal processing toolkit programmed by Java].

    Science.gov (United States)

    Xie, Haiyuan

    2012-09-01

    According to the biomedical signal characteristics, a new biomedical signal processing toolkit is developed. The toolkit is programmed by Java. It is used in basic digital signal processing, random signal processing and etc. All the methods in toolkit has been tested, the program is robust. The feature of the toolkit is detailed explained, easy use and good practicability.

  12. Energy Savings Measurement and Verification Toolkit Guide: Version 2.96

    Science.gov (United States)

    2004-07-01

    American Society of Heating, Refrigerating , and Air-Conditioning Engineers ( ASHRAE ) Guideline 14-2002, Measurement of Energy and Demand Savings... ASHRAE , Atlanta GA, 2002). 2 ERDC/CERL SR-04-13 brated simulation model. The toolkit is based on a collection of Microsoft Excel workbooks, with...enough to apply to most file compression utilities. 1. Double-click the current *.zip archive containing the toolkit (Figure 1). The ar- chive will

  13. The Zoltan and Isorropia Parallel Toolkits for Combinatorial Scientific Computing: Partitioning, Ordering and Coloring

    Directory of Open Access Journals (Sweden)

    Erik G. Boman

    2012-01-01

    Full Text Available Partitioning and load balancing are important problems in scientific computing that can be modeled as combinatorial problems using graphs or hypergraphs. The Zoltan toolkit was developed primarily for partitioning and load balancing to support dynamic parallel applications, but has expanded to support other problems in combinatorial scientific computing, including matrix ordering and graph coloring. Zoltan is based on abstract user interfaces and uses callback functions. To simplify the use and integration of Zoltan with other matrix-based frameworks, such as the ones in Trilinos, we developed Isorropia as a Trilinos package, which supports most of Zoltan's features via a matrix-based interface. In addition to providing an easy-to-use matrix-based interface to Zoltan, Isorropia also serves as a platform for additional matrix algorithms. In this paper, we give an overview of the Zoltan and Isorropia toolkits, their design, capabilities and use. We also show how Zoltan and Isorropia enable large-scale, parallel scientific simulations, and describe current and future development in the next-generation package Zoltan2.

  14. PS1-29: Resources to Facilitate Multi-site Collaboration: the PRIMER Research Toolkit

    Science.gov (United States)

    Greene, Sarah; Thompson, Ella; Baldwin, Laura-Mae; Neale, Anne Victoria; Dolor, Rowena

    2010-01-01

    Background and Aims: The national research enterprise has typically functioned in a decentralized fashion, resulting in duplicative or undocumented processes, impeding not only the pace of research, but diffusion of established best practices. To remedy this, many long-standing networks have begun capturing and documenting proven strategies to streamline and standardize various aspects of the research process. The project, “Partnership-driven Resources to IMprove and Enhance Research” (PRIMER), was funded through the Clinical and Translational Science Awards (CTSA) initiative to leverage the collective expertise from two networks: the HMO Research Network and Practice Based Research Networks (PBRNs). Each network has a shared goal of propagating research resources and best practices. Methods: We created and distributed an online survey to 92 CTSA and PBRN representatives in March, 2009 to define critical needs and existing resources that could inform a resource repository. The survey identified barriers and benefits to forming research partnerships, and assessed the perceived utility of various tools that could accelerate the research process. The study team identified, reviewed and organized tools based on the typical research trajectory from design to dissemination. Results: Fifty-five of 92 invitees (59%) completed the survey. Respondents rated the ability to conduct community-relevant research through true academic-community partnerships as the top-rated benefit of multi-site research, followed by the opportunity to accelerate translation of research into practice. The top two perceived barriers to multi-site research were ‘funding opportunities are not adequate (e.g., too few, not enough to support true collaborations), and ‘lack of research infrastructure to support [all] partners (e.g., no IT support, IRB, dedicated research staff). Respondents’ ratings of the utility of various tools and templates was used to guide development of an online

  15. ParCAT: A Parallel Climate Analysis Toolkit

    Science.gov (United States)

    Haugen, B.; Smith, B.; Steed, C.; Ricciuto, D. M.; Thornton, P. E.; Shipman, G.

    2012-12-01

    Climate science has employed increasingly complex models and simulations to analyze the past and predict the future of our climate. The size and dimensionality of climate simulation data has been growing with the complexity of the models. This growth in data is creating a widening gap between the data being produced and the tools necessary to analyze large, high dimensional data sets. With single run data sets increasing into 10's, 100's and even 1000's of gigabytes, parallel computing tools are becoming a necessity in order to analyze and compare climate simulation data. The Parallel Climate Analysis Toolkit (ParCAT) provides basic tools that efficiently use parallel computing techniques to narrow the gap between data set size and analysis tools. ParCAT was created as a collaborative effort between climate scientists and computer scientists in order to provide efficient parallel implementations of the computing tools that are of use to climate scientists. Some of the basic functionalities included in the toolkit are the ability to compute spatio-temporal means and variances, differences between two runs and histograms of the values in a data set. ParCAT is designed to facilitate the "heavy lifting" that is required for large, multidimensional data sets. The toolkit does not focus on performing the final visualizations and presentation of results but rather, reducing large data sets to smaller, more manageable summaries. The output from ParCAT is provided in commonly used file formats (NetCDF, CSV, ASCII) to allow for simple integration with other tools. The toolkit is currently implemented as a command line utility, but will likely also provide a C library for developers interested in tighter software integration. Elements of the toolkit are already being incorporated into projects such as UV-CDAT and CMDX. There is also an effort underway to implement portions of the CCSM Land Model Diagnostics package using ParCAT in conjunction with Python and gnuplot. Par

  16. Audit: Automated Disk Investigation Toolkit

    Directory of Open Access Journals (Sweden)

    Umit Karabiyik

    2014-09-01

    Full Text Available Software tools designed for disk analysis play a critical role today in forensics investigations. However, these digital forensics tools are often difficult to use, usually task specific, and generally require professionally trained users with IT backgrounds. The relevant tools are also often open source requiring additional technical knowledge and proper configuration. This makes it difficult for investigators without some computer science background to easily conduct the needed disk analysis. In this paper, we present AUDIT, a novel automated disk investigation toolkit that supports investigations conducted by non-expert (in IT and disk technology and expert investigators. Our proof of concept design and implementation of AUDIT intelligently integrates open source tools and guides non-IT professionals while requiring minimal technical knowledge about the disk structures and file systems of the target disk image.

  17. A framework for a teaching toolkit in entrepreneurship education.

    Science.gov (United States)

    Fellnhofer, Katharina

    2017-01-01

    Despite mounting interest in entrepreneurship education (EE), innovative approaches such as multimedia, web-based toolkits including entrepreneurial storytelling have been largely ignored in the EE discipline. Therefore, this conceptual contribution introduces eight propositions as a fruitful basis for assessing a 'learning-through-real-multimedia-entrepreneurial-narratives' pedagogical approach. These recommendations prepare the grounds for a future, empirical investigation of this currently under-researched topic, which could be essential for multiple domains including academic, business and society.

  18. An expanded framework for the advanced computational testing and simulation toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Marques, Osni A.; Drummond, Leroy A.

    2003-11-09

    The Advanced Computational Testing and Simulation (ACTS) Toolkit is a set of computational tools developed primarily at DOE laboratories and is aimed at simplifying the solution of common and important computational problems. The use of the tools reduces the development time for new codes and the tools provide functionality that might not otherwise be available. This document outlines an agenda for expanding the scope of the ACTS Project based on lessons learned from current activities. Highlights of this agenda include peer-reviewed certification of new tools; finding tools to solve problems that are not currently addressed by the Toolkit; working in collaboration with other software initiatives and DOE computer facilities; expanding outreach efforts; promoting interoperability, further development of the tools; and improving functionality of the ACTS Information Center, among other tasks. The ultimate goal is to make the ACTS tools more widely used and more effective in solving DOE's and the nation's scientific problems through the creation of a reliable software infrastructure for scientific computing.

  19. ARC Code TI: Crisis Mapping Toolkit

    Data.gov (United States)

    National Aeronautics and Space Administration — The Crisis Mapping Toolkit (CMT) is a collection of tools for processing geospatial data (images, satellite data, etc.) into cartographic products that improve...

  20. NOAA Weather and Climate Toolkit (WCT)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The NOAA Weather and Climate Toolkit is an application that provides simple visualization and data export of weather and climatological data archived at NCDC. The...

  1. Usability testing of a fall prevention toolkit.

    Science.gov (United States)

    Keuter, Kayla R; Berg, Gina M; Hervey, Ashley M; Rogers, Nicole

    2015-05-01

    This study sought to evaluate a fall prevention toolkit, determine its ease of use and user satisfaction, and determine the preferred venue of distribution. Three forms of assessment were used: focus groups, usability testing, and surveys. Focus group participants were recruited from four locations: two rural health clinics and two urban centers. Usability testing participants were recruited from two rural health clinics. Survey questions included self-reported prior falls, current fall prevention habits, reaction to the toolkit, and demographics. Participants reported the toolkit was attractive, well-organized, and easy to use, but may contain too much information. Most participants admitted they would not actively use the toolkit on their own, but prefer having it introduced by a healthcare provider or in a social setting. Healthcare focuses on customer satisfaction; therefore, providers benefit from knowing patient preferred methods of learning fall prevention strategies.

  2. Water Quality Trading Toolkit for Permit Writers

    Science.gov (United States)

    The Water Quality Trading Toolkit for Permit Writers is EPA’s first “how-to” manual on designing and implementing water quality trading programs. It helps NPDES permitting authorities incorporate trading provisions into permits.

  3. Development of an Integrated Human Factors Toolkit

    Science.gov (United States)

    Resnick, Marc L.

    2003-01-01

    An effective integration of human abilities and limitations is crucial to the success of all NASA missions. The Integrated Human Factors Toolkit facilitates this integration by assisting system designers and analysts to select the human factors tools that are most appropriate for the needs of each project. The HF Toolkit contains information about a broad variety of human factors tools addressing human requirements in the physical, information processing and human reliability domains. Analysis of each tool includes consideration of the most appropriate design stage, the amount of expertise in human factors that is required, the amount of experience with the tool and the target job tasks that are needed, and other factors that are critical for successful use of the tool. The benefits of the Toolkit include improved safety, reliability and effectiveness of NASA systems throughout the agency. This report outlines the initial stages of development for the Integrated Human Factors Toolkit.

  4. A Geospatial Decision Support System Toolkit Project

    Data.gov (United States)

    National Aeronautics and Space Administration — We propose to design a working prototype Geospatial Decision Support Toolkit (GeoKit) that will enable scientists, agencies, and stakeholders to configure and deploy...

  5. Volumetric T1 and T2 magnetic resonance brain toolkit for relaxometry mapping simulation

    Directory of Open Access Journals (Sweden)

    Antonio Carlos da Silva Senra Filho

    Full Text Available Abstract Introduction Relaxometry images are an important magnetic resonance imaging (MRI technique in the clinical routine. Many diagnoses are based on the relaxometry maps to infer abnormal state in the tissue characteristic relaxation constant. In order to study the performance of these image processing approaches, a controlled simulated environment is necessary. However, a simulated relaxometry image tool is still lacking. This study proposes a computational anatomical brain phantom for MRI relaxometry images, which aims to offer an easy and flexible toolkit to test different image processing techniques, applied to MRI relaxometry maps in a controlled simulated environment. Methods A pipeline of image processing techniques such as brain extraction, image segmentation, normalization to a common space and signal relaxation decay simulation, were applied to a brain structural ICBM brain template, on both T1 and T2 weighted images, in order to simulate a volumetric brain relaxometry phantom. The FMRIB Software Library (FSL toolkits were used here as the base image processing needed to all the relaxometry reconstruction. Results All the image processing procedures are performed using automatic algorithms. In addition, different artefact levels can be set from different sources such as Rician noise and radio-frequency inhomogeneity noises. Conclusion The main goal of this project is to help researchers in their future image processing analysis involving MRI relaxometry images, offering reliable and robust brain relaxometry simulation modelling. Furthermore, the entire pipeline is open-source, which provides a wide collaboration between researchers who may want to improve the software and its functionality.

  6. eVITAL: A Preliminary Taxonomy and Electronic Toolkit of Health-Related Habits and Lifestyle

    Directory of Open Access Journals (Sweden)

    Luis Salvador-Carulla

    2012-01-01

    Full Text Available Objectives. To create a preliminary taxonomy and related toolkit of health-related habits (HrH following a person-centered approach with a focus on primary care. Methods. From 2003–2009, a working group (n=6 physicians defined the knowledge base, created a framing document, and selected evaluation tools using an iterative process. Multidisciplinary focus groups (n=29 health professionals revised the document and evaluation protocol and participated in a feasibility study and review of the model based on a demonstration study with 11 adult volunteers in Antequera, Spain. Results. The preliminary taxonomy contains 6 domains of HrH and 1 domain of additional health descriptors, 3 subdomains, 43 dimensions, and 141 subdimensions. The evaluation tool was completed by the 11 volunteers. The eVITAL toolkit contains history and examination items for 4 levels of engagement: self-assessment, basic primary care, extended primary care, and specialty care. There was positive feedback from the volunteers and experts, but concern about the length of the evaluation. Conclusions. We present the first taxonomy of HrH, which may aid the development of the new models of care such as the personal contextual factors of the International Classification of Functioning (ICF and the positive and negative components of the multilevel person-centered integrative diagnosis model.

  7. The Next Generation of the Montage Image Mosaic Toolkit

    CERN Document Server

    Berriman, G Bruce; Rusholme, B; Robitaille, T

    2016-01-01

    The scientific computing landscape has evolved dramatically in the past few years, with new schemes for organizing and storing data that reflect the growth in size and complexity of astronomical data sets. In response to this changing landscape, we are, over the next two years, deploying the next generation of the Montage toolkit ([ascl:1010.036]). The first release (October 2015) supports multi-dimensional data sets ("data cubes"), and insertion of XMP/AVM tags that allows images to "drop-in" to the WWT. The same release offers a beta-version of web-based interactive visualization of images; this includes wrappers for visualization in Python. Subsequent releases will support HEALPix (now standard in cosmic background experiments); incorporation of Montage into package managers (which enable automated management of software builds), and support for a library that will enable Montage to be called directly from Python. This next generation toolkit will inherit the architectural benefits of the current engine - ...

  8. A Modular Toolkit for Distributed Interactions

    Directory of Open Access Journals (Sweden)

    Julien Lange

    2011-10-01

    Full Text Available We discuss the design, architecture, and implementation of a toolkit which supports some theories for distributed interactions. The main design principles of our architecture are flexibility and modularity. Our main goal is to provide an easily extensible workbench to encompass current algorithms and incorporate future developments of the theories. With the help of some examples, we illustrate the main features of our toolkit.

  9. Web applications using the Google Web Toolkit

    OpenAIRE

    von Wenckstern, Michael

    2013-01-01

    This diploma thesis describes how to create or convert traditional Java programs to desktop-like rich internet applications with the Google Web Toolkit. The Google Web Toolkit is an open source development environment, which translates Java code to browser and device independent HTML and JavaScript. Most of the GWT framework parts, including the Java to JavaScript compiler as well as important security issues of websites will be introduced. The famous Agricola board game will be ...

  10. Web applications using the Google Web Toolkit

    OpenAIRE

    von Wenckstern, Michael

    2013-01-01

    This diploma thesis describes how to create or convert traditional Java programs to desktop-like rich internet applications with the Google Web Toolkit. The Google Web Toolkit is an open source development environment, which translates Java code to browser and device independent HTML and JavaScript. Most of the GWT framework parts, including the Java to JavaScript compiler as well as important security issues of websites will be introduced. The famous Agricola board game will be ...

  11. Wetland Resources Action Planning (WRAP) toolkit

    DEFF Research Database (Denmark)

    Bunting, Stuart W.; Smith, Kevin G.; Lund, Søren;

    2013-01-01

    The Wetland Resources Action Planning (WRAP) toolkit is a toolkit of research methods and better management practices used in HighARCS (Highland Aquatic Resources Conservation and Sustainable Development), an EU-funded project with field experiences in China, Vietnam and India. It aims...... to communicate best practices in conserving biodiversity and sustaining ecosystem services to potential users and to promote the wise-use of aquatic resources, improve livelihoods and enhance policy information....

  12. Designing a Composable Geometric Toolkit for Versatility in Applications to Simulation Development

    Science.gov (United States)

    Reed, Gregory S.; Campbell, Thomas

    2008-01-01

    Conceived and implemented through the development of probabilistic risk assessment simulations for Project Constellation, the Geometric Toolkit allows users to create, analyze, and visualize relationships between geometric shapes in three-space using the MATLAB computing environment. The key output of the toolkit is an analysis of how emanations from one "source" geometry (e.g., a leak in a pipe) will affect another "target" geometry (e.g., another heat-sensitive component). It can import computer-aided design (CAD) depictions of a system to be analyzed, allowing the user to reliably and easily represent components within the design and determine the relationships between them, ultimately supporting more technical or physics-based simulations that use the toolkit. We opted to develop a variety of modular, interconnecting software tools to extend the scope of the toolkit, providing the capability to support a range of applications. This concept of simulation composability allows specially-developed tools to be reused by assembling them in various combinations. As a result, the concepts described here and implemented in this toolkit have a wide range of applications outside the domain of risk assessment. To that end, the Geometric Toolkit has been evaluated for use in other unrelated applications due to the advantages provided by its underlying design.

  13. A population-based randomized controlled trial of the effect of combining a pedometer with an intervention toolkit on physical activity among individuals with low levels of physical activity or fitness

    DEFF Research Database (Denmark)

    Petersen, Christina Bjørk; Severin, Maria; Hansen, Andreas Wolff

    2012-01-01

    To examine if receiving a pedometer along with an intervention toolkit is associated with increased physical activity, aerobic fitness and better self-rated health among individuals with low levels of physical activity or fitness.......To examine if receiving a pedometer along with an intervention toolkit is associated with increased physical activity, aerobic fitness and better self-rated health among individuals with low levels of physical activity or fitness....

  14. Guiding Principles for Implementing School-Based Management Programs: An Online Toolkit Providing General Principles That Can Be Applied to the Implementation of School-Based Management Reforms

    Science.gov (United States)

    Patrinos, Harry Anthony; Fasih, Tazeen; Barrera, Felipe; Garcia-Moreno, Vicente A.; Bentaouet-Kattan, Raja; Baksh, Shaista; Wickramasekera, Inosha

    2007-01-01

    School-based management (SBM) has become a very popular movement over the past decade. The World Bank Education Team's SBM work program emerged out of a need to define the concept more clearly, review the evidence, support impact assessments in various countries, and provide some initial feedback to teams preparing education projects. During the…

  15. Guide to Using the WIND Toolkit Validation Code

    Energy Technology Data Exchange (ETDEWEB)

    Lieberman-Cribbin, W.; Draxl, C.; Clifton, A.

    2014-12-01

    In response to the U.S. Department of Energy's goal of using 20% wind energy by 2030, the Wind Integration National Dataset (WIND) Toolkit was created to provide information on wind speed, wind direction, temperature, surface air pressure, and air density on more than 126,000 locations across the United States from 2007 to 2013. The numerical weather prediction model output, gridded at 2-km and at a 5-minute resolution, was further converted to detail the wind power production time series of existing and potential wind facility sites. For users of the dataset it is important that the information presented in the WIND Toolkit is accurate and that errors are known, as then corrective steps can be taken. Therefore, we provide validation code written in R that will be made public to provide users with tools to validate data of their own locations. Validation is based on statistical analyses of wind speed, using error metrics such as bias, root-mean-square error, centered root-mean-square error, mean absolute error, and percent error. Plots of diurnal cycles, annual cycles, wind roses, histograms of wind speed, and quantile-quantile plots are created to visualize how well observational data compares to model data. Ideally, validation will confirm beneficial locations to utilize wind energy and encourage regional wind integration studies using the WIND Toolkit.

  16. pypet: A Python Toolkit for Data Management of Parameter Explorations

    Directory of Open Access Journals (Sweden)

    Robert Meyer

    2016-08-01

    Full Text Available pypet (Python parameter exploration toolkit is a new multi-platform Python toolkit for managing numerical simulations. Sampling the space of model parameters is a key aspect of simulations and numerical experiments. pypet is designed to allow easy and arbitrary sampling of trajectories through a parameter space beyond simple grid searches.pypet collects and stores both simulation parameters and results in a single HDF5 file.This collective storage allows fast and convenient loading of data for further analyses.pypet provides various additional features such as multiprocessing and parallelization of simulations, dynamic loading of data, integration of git version control, and supervision of experiments via the electronic lab notebook Sumatra. pypet supports a rich set of data formats, including native Python types, Numpy and Scipy data, Pandas DataFrames, and BRIAN(2 quantities. Besides these formats, users can easily extend the toolkit to allow customized data types. pypet is a flexible tool suited for both short Python scripts and large scale projects. pypet's various features, especially the tight link between parameters and results, promote reproducible research in computational neuroscience and simulation-based disciplines.

  17. pypet: A Python Toolkit for Data Management of Parameter Explorations.

    Science.gov (United States)

    Meyer, Robert; Obermayer, Klaus

    2016-01-01

    pypet (Python parameter exploration toolkit) is a new multi-platform Python toolkit for managing numerical simulations. Sampling the space of model parameters is a key aspect of simulations and numerical experiments. pypet is designed to allow easy and arbitrary sampling of trajectories through a parameter space beyond simple grid searches. pypet collects and stores both simulation parameters and results in a single HDF5 file. This collective storage allows fast and convenient loading of data for further analyses. pypet provides various additional features such as multiprocessing and parallelization of simulations, dynamic loading of data, integration of git version control, and supervision of experiments via the electronic lab notebook Sumatra. pypet supports a rich set of data formats, including native Python types, Numpy and Scipy data, Pandas DataFrames, and BRIAN(2) quantities. Besides these formats, users can easily extend the toolkit to allow customized data types. pypet is a flexible tool suited for both short Python scripts and large scale projects. pypet's various features, especially the tight link between parameters and results, promote reproducible research in computational neuroscience and simulation-based disciplines.

  18. pypet: A Python Toolkit for Data Management of Parameter Explorations

    Science.gov (United States)

    Meyer, Robert; Obermayer, Klaus

    2016-01-01

    pypet (Python parameter exploration toolkit) is a new multi-platform Python toolkit for managing numerical simulations. Sampling the space of model parameters is a key aspect of simulations and numerical experiments. pypet is designed to allow easy and arbitrary sampling of trajectories through a parameter space beyond simple grid searches. pypet collects and stores both simulation parameters and results in a single HDF5 file. This collective storage allows fast and convenient loading of data for further analyses. pypet provides various additional features such as multiprocessing and parallelization of simulations, dynamic loading of data, integration of git version control, and supervision of experiments via the electronic lab notebook Sumatra. pypet supports a rich set of data formats, including native Python types, Numpy and Scipy data, Pandas DataFrames, and BRIAN(2) quantities. Besides these formats, users can easily extend the toolkit to allow customized data types. pypet is a flexible tool suited for both short Python scripts and large scale projects. pypet's various features, especially the tight link between parameters and results, promote reproducible research in computational neuroscience and simulation-based disciplines. PMID:27610080

  19. The Lp_3561 and Lp_3562 Enzymes Support a Functional Divergence Process in the Lipase/Esterase Toolkit from Lactobacillus plantarum

    Science.gov (United States)

    Esteban-Torres, María; Reverón, Inés; Santamaría, Laura; Mancheño, José M.; de las Rivas, Blanca; Muñoz, Rosario

    2016-01-01

    Lactobacillus plantarum species is a good source of esterases since both lipolytic and esterase activities have been described for strains of this species. No fundamental biochemical difference exists among esterases and lipases since both share a common catalytic mechanism. L. plantarum WCFS1 possesses a protein, Lp_3561, which is 44% identical to a previously described lipase, Lp_3562. In contrast to Lp_3562, Lp_3561 was unable to degrade esters possessing a chain length higher than C4 and the triglyceride tributyrin. As in other L. plantarum esterases, the electrostatic potential surface around the active site in Lp_3561 is predicted to be basic, whereas it is essentially neutral in the Lp_3562 lipase. The fact that the genes encoding both proteins were located contiguously in the L. plantarum WCFS1 genome, suggests that they originated by tandem duplication, and therefore are paralogs as new functions have arisen during evolution. The presence of the contiguous lp_3561 and lp_3562 genes was studied among L. plantarum strains. They are located in a 8,903 bp DNA fragment that encodes proteins involved in the catabolism of sialic acid and are predicted to increase bacterial adaptability under certain growth conditions. PMID:27486450

  20. The Weather and Climate Toolkit

    Science.gov (United States)

    Ansari, S.; Del Greco, S.; Hankins, B.

    2010-12-01

    The Weather and Climate Toolkit (WCT) is free, platform independent software distributed from NOAA’s National Climatic Data Center (NCDC). The WCT allows the visualization and data export of weather and climate data, including Radar, Satellite and Model data. By leveraging the NetCDF for Java library and Common Data Model, the WCT is extremely scalable and capable of supporting many new datasets in the future. Gridded NetCDF files (regular and irregularly spaced, using Climate-Forecast (CF) conventions) are supported, along with many other formats including GRIB. The WCT provides tools for custom data overlays, Web Map Service (WMS) background maps, animations and basic filtering. The export of images and movies is provided in multiple formats. The WCT Data Export Wizard allows for data export in both vector polygon/point (Shapefile, Well-Known Text) and raster (GeoTIFF, ESRI Grid, VTK, Gridded NetCDF) formats. These data export features promote the interoperability of weather and climate information with various scientific communities and common software packages such as ArcGIS, Google Earth, MatLAB, GrADS and R. The WCT also supports an embedded, integrated Google Earth instance. The Google Earth Browser Plugin allows seamless visualization of data on a native 3-D Google Earth instance linked to the standard 2-D map. Level-II NEXRAD data for Hurricane Katrina GPCP (Global Precipitation Product), visualized in 2-D and internal Google Earth view.

  1. Using a meiosis detection toolkit to investigate ancient asexual "scandals" and the evolution of sex.

    Science.gov (United States)

    Schurko, Andrew M; Logsdon, John M

    2008-06-01

    Sexual reproduction is the dominant reproductive mode in eukaryotes but, in many taxa, it has never been observed. Molecular methods that detect evidence of sex are largely based on the genetic consequences of sexual reproduction. Here we describe a powerful new approach to directly search genomes for genes that function in meiosis. We describe a "meiosis detection toolkit", a set of meiotic genes that represent the best markers for the presence of meiosis. These genes are widely present in eukaryotes, function only in meiosis and can be isolated by degenerate PCR. The presence of most, or all, of these genes in a genome would suggest they have been maintained for meiosis and, implicitly, sexual reproduction. In contrast, their absence would be consistent with the loss of meiosis and asexuality. This approach will help to understand both meiotic gene evolution and the capacity for meiosis and sex in putative obligate asexuals.

  2. Machinery design handbook oriented 3D standard parts library development based on Pro/TOOLKIT%面向机械设计手册的基于Pro/TOOLKIT的三维标准件库开发

    Institute of Scientific and Technical Information of China (English)

    曹岩; 杨艳丽; 白瑀; 杜江; 范春霞

    2011-01-01

    利用Pro/ENGINEER提供的二次开发工具Pro/TOOLKIT、Family Table和Visual C++6.0对Pro/ENGINEER进行二次开发,开发符合我国标准的铆连接标准件库系统.运用特征建模和Family Table创建铆连接标准件3D库.利用动态链接库(DLL)方式实现Pro/ENGINEER与MFC间的接口,突破Pro/TOOLKIT的局限,构建符合工程习惯的人机界面.以最新版《机械设计手册》为依据,建立了包含了各种不同类型的铆钉、铆螺母的Access数据库,通过开发Pro/ENGINEER与Access数据库接口,实现在Pro/ENGINEER环境下对Access数据库的调用.该系统具有直观、友好,减少了产品设计中的重复性工作,提高了开发效率和质量.该方法可用于开发专门应用领域的所需的标准件库和通用件库.%Pro/TOOLKIT and Family Table provided by Pro/ENGINEER and Visual C++6.0 are utilized to develop 3D standard parts library of riveting joint according to national riveting joint standards. Feature based modeling and Family Table are used to 3D riveting joint parts library. The interface between Pro/ENGINEER and MFC is developed using DLLs to establish man-machine interface that accords with engineering personnel' s habit. This breaks through the limitation of Pro/TOOLKIT. According to the newest Machinery Design Handbook, Access databases of various rivets and rivet nuts are established, the interface between Pro/ENGINEER and Access databases is developed to call the data in Access databases from Pro/ENGINEER. The library is intuitionistic and easy to use. Consequently, tediously repetitive work can be reduced and product design efficiency and quality can be improved. The approach can also be applied to develop other more professional part libraries in special domains.

  3. Sinc-function based Network

    DEFF Research Database (Denmark)

    Madsen, Per Printz

    1999-01-01

    The purpose of this paper is to describe a neural network (SNN), that is based on Shannons ideas of reconstruction of a real continuous function from its samples. The basic function, used in this network, is the Sinc-function. Two learning algorithms are described. A simple one called IM...

  4. Sinc-function based Network

    DEFF Research Database (Denmark)

    Madsen, Per Printz

    1998-01-01

    The purpose of this paper is to describe a neural network (SNN), that is based on Shannons ideas of reconstruction of a real continuous function from its samples. The basic function, used in this network, is the Sinc-function. Two learning algorithms are described. A simple one called IM...

  5. GENFIT - a generic track reconstruction toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Hoeppner, Christian; Neubert, Sebastian [Technische Universitaet Muenchen, Physik Department E18, 85748 Garching (Germany)

    2008-07-01

    Experiments in high energy physics use a combination of widely different detector systems to achieve an optimal measurement of particle trajectories. The software package GENFIT has been developed to provide a consistent treatment of track parameter estimation with hits from detectors providing different spatial information, e.g. strip projections, 3-D space points, drift distances to wires, etc. The concept is based on the idea of a full separation of parameterizations (hit-measurements and track models) from the algebra of regression algorithms. This implements the possibility to switch between different track propagation algorithms and detector geometries without changing the core fitting classes. Key components of the system are the Kalman filter and so-called virtual detector planes. An interface to the propagation package GEANE has also been realized. The poster illustrates the object-oriented architecture of the toolkit which uses generic programming techniques to realize the flexible and portable design. Some applications in the framework of the PANDA simulation studies are shown.

  6. GENFIT - a Generic track reconstruction toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Neubert, Sebastian; Hoeppner, Christian [Physik Department E18, TU Muenchen, D-85748 Garching (Germany)

    2008-07-01

    Experiments in high energy physics use a combination of widely different detector systems to achieve an optimal measurement of particle trajectories. The software package GENFIT has been developed to provide a consistent treatment of track parameter estimation with hits from detectors providing different spatial information, e.g. strip projections, 3-D space points, drift distances to wires, etc. The concept is based on the idea of a full separation of parameterizations (hit-measurements and track models) from the algebra of regression algorithms. This implements the possibility to switch between different track propagation algorithms and detector geometries without changing the core fitting classes. Key components of the system are the Kalman filter and the so called virtual detector planes. An interface to the propagation package GEANE has also been realized. The poster illustrates the object oriented architecture of the toolkit which uses generic programming techniques to realize the flexible and portable design. Some applications in the framework of the PANDA simulation studies are shown.

  7. Modelling toolkit for simulation of maglev devices

    Science.gov (United States)

    Peña-Roche, J.; Badía-Majós, A.

    2017-01-01

    A stand-alone App1 has been developed, focused on obtaining information about relevant engineering properties of magnetic levitation systems. Our modelling toolkit provides real time simulations of 2D magneto-mechanical quantities for superconductor (SC)/permanent magnet structures. The source code is open and may be customised for a variety of configurations. Ultimately, it relies on the variational statement of the critical state model for the superconducting component and has been verified against experimental data for YBaCuO/NdFeB assemblies. On a quantitative basis, the values of the arising forces, induced superconducting currents, as well as a plot of the magnetic field lines are displayed upon selection of an arbitrary trajectory of the magnet in the vicinity of the SC. The stability issues related to the cooling process, as well as the maximum attainable forces for a given material and geometry are immediately observed. Due to the complexity of the problem, a strategy based on cluster computing, database compression, and real-time post-processing on the device has been implemented.

  8. Assessing the effectiveness of the Pesticides and Farmworker Health Toolkit: a curriculum for enhancing farmworkers' understanding of pesticide safety concepts.

    Science.gov (United States)

    LePrevost, Catherine E; Storm, Julia F; Asuaje, Cesar R; Arellano, Consuelo; Cope, W Gregory

    2014-01-01

    Among agricultural workers, migrant and seasonal farmworkers have been recognized as a special risk population because these laborers encounter cultural challenges and linguistic barriers while attempting to maintain their safety and health within their working environments. The crop-specific Pesticides and Farmworker Health Toolkit (Toolkit) is a pesticide safety and health curriculum designed to communicate to farmworkers pesticide hazards commonly found in their working environments and to address Worker Protection Standard (WPS) pesticide training criteria for agricultural workers. The goal of this preliminary study was to test evaluation items for measuring knowledge increases among farmworkers and to assess the effectiveness of the Toolkit in improving farmworkers' knowledge of key WPS and risk communication concepts when the Toolkit lesson was delivered by trained trainers in the field. After receiving training on the curriculum, four participating trainers provided lessons using the Toolkit as part of their regular training responsibilities and orally administered a pre- and post-lesson evaluation instrument to 20 farmworker volunteers who were generally representative of the national farmworker population. Farmworker knowledge of pesticide safety messages significantly (PHealth Toolkit is an effective, research-based pesticide safety and health intervention for the at-risk farmworker population and identifies a testing format appropriate for evaluating the Toolkit and other similar interventions for farmworkers in the field.

  9. The Topology ToolKit.

    Science.gov (United States)

    Tierny, Julien; Favelier, Guillaume; Levine, Joshua A; Gueunet, Charles; Michaux, Michael

    2017-08-29

    This system paper presents the Topology ToolKit (TTK), a software platform designed for the topological analysis of scalar data in scientific visualization. While topological data analysis has gained in popularity over the last two decades, it has not yet been widely adopted as a standard data analysis tool for end users or developers. TTK aims at addressing this problem by providing a unified, generic, efficient, and robust implementation of key algorithms for the topological analysis of scalar data, including: critical points, integral lines, persistence diagrams, persistence curves, merge trees, contour trees, Morse-Smale complexes, fiber surfaces, continuous scatterplots, Jacobi sets, Reeb spaces, and more. TTK is easily accessible to end users due to a tight integration with ParaView. It is also easily accessible to developers through a variety of bindings (Python, VTK/C++) for fast prototyping or through direct, dependency-free, C++, to ease integration into pre-existing complex systems. While developing TTK, we faced several algorithmic and software engineering challenges, which we document in this paper. In particular, we present an algorithm for the construction of a discrete gradient that complies to the critical points extracted in the piecewise-linear setting. This algorithm guarantees a combinatorial consistency across the topological abstractions supported by TTK, and importantly, a unified implementation of topological data simplification for multi-scale exploration and analysis. We also present a cached triangulation data structure, that supports time efficient and generic traversals, which self-adjusts its memory usage on demand for input simplicial meshes and which implicitly emulates a triangulation for regular grids with no memory overhead. Finally, we describe an original software architecture, which guarantees memory efficient and direct accesses to TTK features, while still allowing for researchers powerful and easy bindings and extensions

  10. Desensitized Optimal Filtering and Sensor Fusion Toolkit

    Science.gov (United States)

    Karlgaard, Christopher D.

    2015-01-01

    Analytical Mechanics Associates, Inc., has developed a software toolkit that filters and processes navigational data from multiple sensor sources. A key component of the toolkit is a trajectory optimization technique that reduces the sensitivity of Kalman filters with respect to model parameter uncertainties. The sensor fusion toolkit also integrates recent advances in adaptive Kalman and sigma-point filters for non-Gaussian problems with error statistics. This Phase II effort provides new filtering and sensor fusion techniques in a convenient package that can be used as a stand-alone application for ground support and/or onboard use. Its modular architecture enables ready integration with existing tools. A suite of sensor models and noise distribution as well as Monte Carlo analysis capability are included to enable statistical performance evaluations.

  11. An Overview of the Geant4 Toolkit

    CERN Document Server

    Apostolakis, John

    2007-01-01

    Geant4 is a toolkit for the simulation of the transport of radiation trough matter. With a flexible kernel and choices between different physics modeling choices, it has been tailored to the requirements of a wide range of applications. With the toolkit a user can describe a setup's or detector's geometry and materials, navigate inside it, simulate the physical interactions using a choice of physics engines, underlying physics cross-sections and models, visualise and store results. Physics models describing electromagnetic and hadronic interactions are provided, as are decays and processes for optical photons. Several models, with different precision and performance are available for many processes. The toolkit includes coherent physics model configurations, which are called physics lists. Users can choose an existing physics list or create their own, depending on their requirements and the application area. A clear structure and readable code, enable the user to investigate the origin of physics results. App...

  12. 78 FR 58520 - U.S. Environmental Solutions Toolkit

    Science.gov (United States)

    2013-09-24

    ... International Trade Administration U.S. Environmental Solutions Toolkit AGENCY: International Trade... Solutions Toolkit to be used by foreign environmental officials and foreign end-users of environmental.... Environmental Solutions Toolkit should self- identify by November 1, 2013, at 5:00 p.m. Eastern Standard...

  13. "Handy Manny" and the Emergent Literacy Technology Toolkit

    Science.gov (United States)

    Hourcade, Jack J.; Parette, Howard P., Jr.; Boeckmann, Nichole; Blum, Craig

    2010-01-01

    This paper outlines the use of a technology toolkit to support emergent literacy curriculum and instruction in early childhood education settings. Components of the toolkit include hardware and software that can facilitate key emergent literacy skills. Implementation of the comprehensive technology toolkit enhances the development of these…

  14. The development of an artificial organic networks toolkit for LabVIEW.

    Science.gov (United States)

    Ponce, Hiram; Ponce, Pedro; Molina, Arturo

    2015-03-15

    Two of the most challenging problems that scientists and researchers face when they want to experiment with new cutting-edge algorithms are the time-consuming for encoding and the difficulties for linking them with other technologies and devices. In that sense, this article introduces the artificial organic networks toolkit for LabVIEW™ (AON-TL) from the implementation point of view. The toolkit is based on the framework provided by the artificial organic networks technique, giving it the potential to add new algorithms in the future based on this technique. Moreover, the toolkit inherits both the rapid prototyping and the easy-to-use characteristics of the LabVIEW™ software (e.g., graphical programming, transparent usage of other softwares and devices, built-in programming event-driven for user interfaces), to make it simple for the end-user. In fact, the article describes the global architecture of the toolkit, with particular emphasis in the software implementation of the so-called artificial hydrocarbon networks algorithm. Lastly, the article includes two case studies for engineering purposes (i.e., sensor characterization) and chemistry applications (i.e., blood-brain barrier partitioning data model) to show the usage of the toolkit and the potential scalability of the artificial organic networks technique.

  15. Tips from the toolkit: 2--assessing organisational strengths.

    Science.gov (United States)

    Steer, Neville

    2010-03-01

    'SWOT' is a familiar term used in the development of business strategy. It is based on the identification of strengths, weaknesses, opportunities and threats as part of a strategic analysis approach. While there are a range of more sophisticated models for analysing and developing business strategy, it is a useful model for general practice as it is less time consuming than other approaches. The following article discusses some ways to apply this framework to assess organisational strengths (and weaknesses). It is based on The Royal Australian College of General Practitioners' "General practice management toolkit".

  16. PsyToolkit: a software package for programming psychological experiments using Linux.

    Science.gov (United States)

    Stoet, Gijsbert

    2010-11-01

    PsyToolkit is a set of software tools for programming psychological experiments on Linux computers. Given that PsyToolkit is freely available under the Gnu Public License, open source, and designed such that it can easily be modified and extended for individual needs, it is suitable not only for technically oriented Linux users, but also for students, researchers on small budgets, and universities in developing countries. The software includes a high-level scripting language, a library for the programming language C, and a questionnaire presenter. The software easily integrates with other open source tools, such as the statistical software package R. PsyToolkit is designed to work with external hardware (including IoLab and Cedrus response keyboards and two common digital input/output boards) and to support millisecond timing precision. Four in-depth examples explain the basic functionality of PsyToolkit. Example 1 demonstrates a stimulus-response compatibility experiment. Example 2 demonstrates a novel mouse-controlled visual search experiment. Example 3 shows how to control light emitting diodes using PsyToolkit, and Example 4 shows how to build a light-detection sensor. The last two examples explain the electronic hardware setup such that they can even be used with other software packages.

  17. Cinfony – combining Open Source cheminformatics toolkits behind a common interface

    Directory of Open Access Journals (Sweden)

    Hutchison Geoffrey R

    2008-12-01

    Full Text Available Abstract Background Open Source cheminformatics toolkits such as OpenBabel, the CDK and the RDKit share the same core functionality but support different sets of file formats and forcefields, and calculate different fingerprints and descriptors. Despite their complementary features, using these toolkits in the same program is difficult as they are implemented in different languages (C++ versus Java, have different underlying chemical models and have different application programming interfaces (APIs. Results We describe Cinfony, a Python module that presents a common interface to all three of these toolkits, allowing the user to easily combine methods and results from any of the toolkits. In general, the run time of the Cinfony modules is almost as fast as accessing the underlying toolkits directly from C++ or Java, but Cinfony makes it much easier to carry out common tasks in cheminformatics such as reading file formats and calculating descriptors. Conclusion By providing a simplified interface and improving interoperability, Cinfony makes it easy to combine complementary features of OpenBabel, the CDK and the RDKit.

  18. TRSkit: A Simple Digital Library Toolkit

    Science.gov (United States)

    Nelson, Michael L.; Esler, Sandra L.

    1997-01-01

    This paper introduces TRSkit, a simple and effective toolkit for building digital libraries on the World Wide Web. The toolkit was developed for the creation of the Langley Technical Report Server and the NASA Technical Report Server, but is applicable to most simple distribution paradigms. TRSkit contains a handful of freely available software components designed to be run under the UNIX operating system and served via the World Wide Web. The intended customer is the person that must continuously and synchronously distribute anywhere from 100 - 100,000's of information units and does not have extensive resources to devote to the problem.

  19. Integration of Human Reliability Analysis Models into the Simulation-Based Framework for the Risk-Informed Safety Margin Characterization Toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Boring, Ronald [Idaho National Lab. (INL), Idaho Falls, ID (United States); Mandelli, Diego [Idaho National Lab. (INL), Idaho Falls, ID (United States); Rasmussen, Martin [Norwegian Univ. of Science and Technology, Trondheim (Norway). Social Research; Herberger, Sarah [Idaho National Lab. (INL), Idaho Falls, ID (United States); Ulrich, Thomas [Idaho National Lab. (INL), Idaho Falls, ID (United States); Groth, Katrina [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Smith, Curtis [Idaho National Lab. (INL), Idaho Falls, ID (United States)

    2016-06-01

    This report presents an application of a computation-based human reliability analysis (HRA) framework called the Human Unimodel for Nuclear Technology to Enhance Reliability (HUNTER). HUNTER has been developed not as a standalone HRA method but rather as framework that ties together different HRA methods to model dynamic risk of human activities as part of an overall probabilistic risk assessment (PRA). While we have adopted particular methods to build an initial model, the HUNTER framework is meant to be intrinsically flexible to new pieces that achieve particular modeling goals. In the present report, the HUNTER implementation has the following goals: • Integration with a high fidelity thermal-hydraulic model capable of modeling nuclear power plant behaviors and transients • Consideration of a PRA context • Incorporation of a solid psychological basis for operator performance • Demonstration of a functional dynamic model of a plant upset condition and appropriate operator response This report outlines these efforts and presents the case study of a station blackout scenario to demonstrate the various modules developed to date under the HUNTER research umbrella.

  20. PyEvolve: a toolkit for statistical modelling of molecular evolution

    Directory of Open Access Journals (Sweden)

    Wakefield Matthew J

    2004-01-01

    Full Text Available Abstract Background Examining the distribution of variation has proven an extremely profitable technique in the effort to identify sequences of biological significance. Most approaches in the field, however, evaluate only the conserved portions of sequences – ignoring the biological significance of sequence differences. A suite of sophisticated likelihood based statistical models from the field of molecular evolution provides the basis for extracting the information from the full distribution of sequence variation. The number of different problems to which phylogeny-based maximum likelihood calculations can be applied is extensive. Available software packages that can perform likelihood calculations suffer from a lack of flexibility and scalability, or employ error-prone approaches to model parameterisation. Results Here we describe the implementation of PyEvolve, a toolkit for the application of existing, and development of new, statistical methods for molecular evolution. We present the object architecture and design schema of PyEvolve, which includes an adaptable multi-level parallelisation schema. The approach for defining new methods is illustrated by implementing a novel dinucleotide model of substitution that includes a parameter for mutation of methylated CpG's, which required 8 lines of standard Python code to define. Benchmarking was performed using either a dinucleotide or codon substitution model applied to an alignment of BRCA1 sequences from 20 mammals, or a 10 species subset. Up to five-fold parallel performance gains over serial were recorded. Compared to leading alternative software, PyEvolve exhibited significantly better real world performance for parameter rich models with a large data set, reducing the time required for optimisation from ~10 days to ~6 hours. Conclusion PyEvolve provides flexible functionality that can be used either for statistical modelling of molecular evolution, or the development of new methods in the

  1. Educational RIS/PACS simulator integrated with the HIPAA compliant auditing (HCA) toolkit

    Science.gov (United States)

    Zhou, Zheng; Liu, Brent J.; Huang, H. K.; Zhang, J.

    2005-04-01

    Health Insurance Portability and Accountability Act (HIPAA), a guideline for healthcare privacy and security, has been officially instituted recently. HIPAA mandates healthcare providers to follow its privacy and security rules, one of which is to have the ability to generate audit trails on the data access for any specific patient on demand. Although most current medical imaging systems such as PACS utilize logs to record their activities, there is a lack of formal methodology to interpret these large volumes of log data and generate HIPAA compliant auditing trails. In this paper, we present a HIPAA compliant auditing (HCA) toolkit for auditing the image data flow of PACS. The toolkit can extract pertinent auditing information from the logs of various PACS components and store the information in a centralized auditing database. The HIPAA compliant audit trails can be generated based on the database, which can also be utilized for data analysis to facilitate the dynamic monitoring of the data flow of PACS. In order to demonstrate the HCA toolkit in a PACS environment, it was integrated with the PACS Simulator, that was presented as an educational tool in 2003 and 2004 SPIE. With the integration of the HCA toolkit with the PACS simulator, users can learn HIPAA audit concepts and how to generate audit trails of image data access in PACS, as well as trace the image data flow of PACS Simulator through the toolkit.

  2. The medical exploration toolkit: an efficient support for visual computing in surgical planning and training.

    Science.gov (United States)

    Mühler, Konrad; Tietjen, Christian; Ritter, Felix; Preim, Bernhard

    2010-01-01

    Application development is often guided by the usage of software libraries and toolkits. For medical applications, the toolkits currently available focus on image analysis and volume rendering. Advance interactive visualizations and user interface issues are not adequately supported. Hence, we present a toolkit for application development in the field of medical intervention planning, training, and presentation--the MEDICALEXPLORATIONTOOLKIT (METK). The METK is based on the rapid prototyping platform MeVisLab and offers a large variety of facilities for an easy and efficient application development process. We present dedicated techniques for advanced medical visualizations, exploration, standardized documentation, adn interface widgets for common tasks. These include, e.g., advanced animation facilities, viewpoint selection, several illustrative rendering techniques, and new techniques for object selection in 3D surface models. No extended programming skills are needed for application building, since a graphical programming approach can be used. the toolkit is freely available and well documented to facilitate the use and extension of the toolkit.

  3. The IGUANA Interactive Graphics TOolkit with Examples from CMS and D0

    Institute of Scientific and Technical Information of China (English)

    GeorgeAlverson; IannaOsborne; 等

    2001-01-01

    IGUANA(Interactive Graphics for User ANAlysis)is a C++ toolkit for developing graphical user interfaces and high performance 2-D and 3-D graphics applications,such as data browsers and detector and event visualisation programs.The IGUANA strategy is to use freely available software(e.g.Qt,SoQt,OpenInventor,OpenGL,HEPVis)and package and extend it to provide a general-purpose and experiment-independent toolkit.We describe the evaluation and choices of publicly available GUI/graphics software and the additional functionality currently provided by IGUANA.We demonstrate the use of IGUANA with several applications built for CMS and D0.

  4. Marine Debris and Plastic Source Reduction Toolkit

    Science.gov (United States)

    Many plastic food service ware items originate on college and university campuses—in cafeterias, snack rooms, cafés, and eateries with take-out dining options. This Campus Toolkit is a detailed “how to” guide for reducing plastic waste on college campuses.

  5. A Toolkit for the Effective Teaching Assistant

    Science.gov (United States)

    Tyrer, Richard; Gunn, Stuart; Lee, Chris; Parker, Maureen; Pittman, Mary; Townsend, Mark

    2004-01-01

    This book offers the notion of a "toolkit" to allow Teaching Assistants (TAs) and colleagues to review and revise their thinking and practice about real issues and challenges in managing individuals, groups, colleagues and themselves in school. In a rapidly changing educational environment the book focuses on combining the underpinning knowledge…

  6. A Toolkit for Stimulating Productive Thinking

    Science.gov (United States)

    Janssen, Fred; de Hullu, Els

    2008-01-01

    Students need tools, thinking skills, to help them think actively and in depth about biological phenomena. They need to know what kind of questions to ask and how to find answers to those questions. In this article we present a toolkit with 12 "thinking tools" for asking and answering questions about biological phenomena from different…

  7. Ready, Set, Respect! GLSEN's Elementary School Toolkit

    Science.gov (United States)

    Gay, Lesbian and Straight Education Network (GLSEN), 2012

    2012-01-01

    "Ready, Set, Respect!" provides a set of tools to help elementary school educators ensure that all students feel safe and respected and develop respectful attitudes and behaviors. It is not a program to be followed but instead is designed to help educators prepare themselves for teaching about and modeling respect. The toolkit responds to…

  8. Plus 50: Business Community Outreach Toolkit

    Science.gov (United States)

    American Association of Community Colleges (NJ1), 2009

    2009-01-01

    This toolkit is designed to support you in building partnerships with the business community. It includes a series of fact sheets you can distribute to employers that discuss the value in hiring plus 50 workers. Individual sections contain footnotes. (Contains 5 web resources.)

  9. Toolkit of Available EPA Green Infrastructure Modeling ...

    Science.gov (United States)

    This webinar will present a toolkit consisting of five EPA green infrastructure models and tools, along with communication material. This toolkit can be used as a teaching and quick reference resource for use by planners and developers when making green infrastructure implementation decisions. It can also be used for low impact development design competitions. Models and tools included: Green Infrastructure Wizard (GIWiz), Watershed Management Optimization Support Tool (WMOST), Visualizing Ecosystem Land Management Assessments (VELMA) Model, Storm Water Management Model (SWMM), and the National Stormwater Calculator (SWC). This webinar will present a toolkit consisting of five EPA green infrastructure models and tools, along with communication material. This toolkit can be used as a teaching and quick reference resource for use by planners and developers when making green infrastructure implementation decisions. It can also be used for low impact development design competitions. Models and tools included: Green Infrastructure Wizard (GIWiz), Watershed Management Optimization Support Tool (WMOST), Visualizing Ecosystem Land Management Assessments (VELMA) Model, Storm Water Management Model (SWMM), and the National Stormwater Calculator (SWC).

  10. GEANT4, the physicists simulation toolkit

    CERN Multimedia

    Perricone, Mike

    2005-01-01

    One of the biggest projects ever mounted in science: the development of the proposed International Linear Collider; serving as combination instruction manual/toolkit/support network is GEANT4, a freely-available software ackage that simulates the passage of particles through scientific instruments (2 pages)

  11. The RAVE/VERTIGO vertex reconstruction toolkit and framework

    Science.gov (United States)

    Waltenberger, W.; Mitaroff, W.; Moser, F.; Pflugfelder, B.; Riedel, H. V.

    2008-07-01

    A detector-independent toolkit for vertex reconstruction (RAVE1) is being developed, along with a standalone framework (VERTIGO2) for testing, analyzing and debugging. The core algorithms represent state-of-the-art for geometric vertex finding and fitting by both linear (Kalman filter) and robust estimation methods. Main design goals are ease of use, flexibility for embedding into existing software frameworks, extensibility, and openness. The implementation is based on modern object-oriented techniques, is coded in C++ with interfaces for Java and Python, and follows an open-source approach. A beta release is available.

  12. RAVE-a Detector-independent vertex reconstruction toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Waltenberger, Wolfgang [Institute of High Energy Physics, Austrian Academy of Sciences A-1050 Vienna (Austria)], E-mail: walten@hephy.oeaw.ac.at; Mitaroff, Winfried; Moser, Fabian [Institute of High Energy Physics, Austrian Academy of Sciences A-1050 Vienna (Austria)

    2007-10-21

    A detector-independent toolkit for vertex reconstruction (RAVE) is being developed, along with a standalone framework (VERTIGO) for testing, analyzing and debugging. The core algorithms represent state of the art for geometric vertex finding and fitting by both linear (Kalman filter) and robust estimation methods. Main design goals are ease of use, flexibility for embedding into existing software frameworks, extensibility, and openness. The implementation is based on modern object-oriented techniques, is coded in C++ with interfaces for Java and Python, and follows an open-source approach. A beta release is available.

  13. The RAVE/VERTIGO vertex reconstruction toolkit and framework

    Energy Technology Data Exchange (ETDEWEB)

    Waltenberger, W; Mitaroff, W; Moser, F; Pflugfelder, B; Riedel, H V [Austrian Academy of Sciences, Institute of High Energy Physics, A-1050 Vienna (Austria)], E-mail: walten@hephy.oeaw.ac.at

    2008-07-15

    A detector-independent toolkit for vertex reconstruction (RAVE{sup 1}) is being developed, along with a standalone framework (VERTIGO{sup 2}) for testing, analyzing and debugging. The core algorithms represent state-of-the-art for geometric vertex finding and fitting by both linear (Kalman filter) and robust estimation methods. Main design goals are ease of use, flexibility for embedding into existing software frameworks, extensibility, and openness. The implementation is based on modern object-oriented techniques, is coded in C++ with interfaces for Java and Python, and follows an open-source approach. A beta release is available.

  14. TMVA The Toolkit for Multivariate Data Analysis eith ROOT

    CERN Document Server

    Höcker, Andreas; Stelzer, Jörg; Tegenfeldt, Fredrik; Voss, Helge

    2008-01-01

    Multivariate classi cation methods based on machine learning techniques have become a fundamental ingredient to most physics analyses. The classi cation techniques themselves have also signi cantly evolved in recent years. Statisticians have found new ways to tune and to combine classi ers to further gain in performance. Integrated into the analysis framework ROOT, TMVA is a toolkit offering a large variety of multivariate classi cation algorithms. TMVA manages the simultaneous training, testing and performance evaluation of all the classi ers with a user-friendly interface, and also steers the application of the trained classi ers to data.

  15. GENFIT — a Generic Track-Fitting Toolkit

    Science.gov (United States)

    Rauch, Johannes; Schlüter, Tobias

    2015-05-01

    GENFIT is an experiment-independent track-fitting toolkit that combines fitting algorithms, track representations, and measurement geometries into a modular framework. We report on a significantly improved version of GENFIT, based on experience gained in the Belle II, P¯ANDA, and FOPI experiments. Improvements concern the implementation of additional track-fitting algorithms, enhanced implementations of Kalman fitters, enhanced visualization capabilities, and additional implementations of measurement types suited for various kinds of tracking detectors. The data model has been revised, allowing for efficient track merging, smoothing, residual calculation, alignment, and storage.

  16. Rich Internet Web Application Development using Google Web Toolkit

    Directory of Open Access Journals (Sweden)

    Niriksha Bhojaraj Kabbin

    2015-05-01

    Full Text Available Web applications in today’s world has a great impact on businesses and are popular since they provide business benefits and hugely deployable. Developing such efficient web applications using leading edge web technologies that promise to deliver upgraded user interface, greater scalability and interoperability, improved performance and usability, among different systems is a challenge. Google Web Toolkit (GWT is one such framework that helps to build Rich Internet Applications (RIAs that enable fertile development of high performance web applications. This paper puts an effort to provide an effective solution to develop quality web based applications with an added layer of security.

  17. A toolkit for determining historical eco-hydrological interactions

    Science.gov (United States)

    Singer, M. B.; Sargeant, C. I.; Evans, C. M.; Vallet-Coulomb, C.

    2016-12-01

    Contemporary climate change is predicted to result in perturbations to hydroclimatic regimes across the globe, with some regions forecast to become warmer and drier. Given that water is a primary determinant of vegetative health and productivity, we can expect shifts in the availability of this critical resource to have significant impacts on forested ecosystems. The subject is particularly complex in environments where multiple sources of water are potentially available to vegetation and which may also exhibit spatial and temporal variability. To anticipate how subsurface hydrological partitioning may evolve in the future and impact overlying vegetation, we require well constrained, historical data and a modelling framework for assessing the dynamics of subsurface hydrology. We outline a toolkit to retrospectively investigate dynamic water use by trees. We describe a synergistic approach, which combines isotope dendrochronology of tree ring cellulose with a biomechanical model, detailed climatic and isotopic data in endmember waters to assess the mean isotopic composition of source water used in annual tree rings. We identify the data requirements and suggest three versions of the toolkit based on data availability. We present sensitivity analyses in order to identify the key variables required to constrain model predictions and then develop empirical relationships for constraining these parameters based on climate records. We demonstrate our methodology within a Mediterranean riparian forest site and show how it can be used along with subsurface hydrological modelling to validate source water determinations, which are fundamental to understanding climatic fluctuations and trends in subsurface hydrology. We suggest that the utility of our toolkit is applicable in riparian zones and in a range of forest environments where distinct isotopic endmembers are present.

  18. The advanced computational testing and simulation toolkit (ACTS)

    Energy Technology Data Exchange (ETDEWEB)

    Drummond, L.A.; Marques, O.

    2002-05-21

    During the past decades there has been a continuous growth in the number of physical and societal problems that have been successfully studied and solved by means of computational modeling and simulation. Distinctively, a number of these are important scientific problems ranging in scale from the atomic to the cosmic. For example, ionization is a phenomenon as ubiquitous in modern society as the glow of fluorescent lights and the etching on silicon computer chips; but it was not until 1999 that researchers finally achieved a complete numerical solution to the simplest example of ionization, the collision of a hydrogen atom with an electron. On the opposite scale, cosmologists have long wondered whether the expansion of the Universe, which began with the Big Bang, would ever reverse itself, ending the Universe in a Big Crunch. In 2000, analysis of new measurements of the cosmic microwave background radiation showed that the geometry of the Universe is flat, and thus the Universe will continue expanding forever. Both of these discoveries depended on high performance computer simulations that utilized computational tools included in the Advanced Computational Testing and Simulation (ACTS) Toolkit. The ACTS Toolkit is an umbrella project that brought together a number of general purpose computational tool development projects funded and supported by the U.S. Department of Energy (DOE). These tools, which have been developed independently, mainly at DOE laboratories, make it easier for scientific code developers to write high performance applications for parallel computers. They tackle a number of computational issues that are common to a large number of scientific applications, mainly implementation of numerical algorithms, and support for code development, execution and optimization. The ACTS Toolkit Project enables the use of these tools by a much wider community of computational scientists, and promotes code portability, reusability, reduction of duplicate efforts

  19. Development of the Mississippi communities for healthy living nutrition education toolkit

    Science.gov (United States)

    The objective of our study was to develop a nutrition education toolkit for communities in the Lower Mississippi Delta (LMD) with content that is current, evidence-based, culturally relevant, and user friendly. The Mississippi Communities for Fealthy Living (MCHL), an evidenced-based nutrition educa...

  20. Kekule.js: An Open Source JavaScript Chemoinformatics Toolkit.

    Science.gov (United States)

    Jiang, Chen; Jin, Xi; Dong, Ying; Chen, Ming

    2016-06-27

    Kekule.js is an open-source, object-oriented JavaScript toolkit for chemoinformatics. It provides methods for many common tasks in molecular informatics, including chemical data input/output (I/O), two- and three-dimensional (2D/3D) rendering of chemical structure, stereo identification, ring perception, structure comparison, and substructure search. Encapsulated widgets to display and edit chemical structures directly in web context are also supplied. Developed with web standards, the toolkit is ideal for building chemoinformatics applications over the Internet. Moreover, it is highly platform-independent and can also be used in desktop or mobile environments. Some initial applications, such as plugins for inputting chemical structures on the web and uses in chemistry education, have been developed based on the toolkit.

  1. Development of the eHealth Literacy Assessment Toolkit, eHLA

    DEFF Research Database (Denmark)

    Lauritzen, Dorthe Furstrand; Kayser, Lars

    2015-01-01

    Assessment toolkit, eHLA, evaluating the user by seven scales: computer familiarity, confidence, incentive and performance as well as functional health literacy, health literacy self-assessment and health literacy performance, as a first step toward development of technology that accommodates the literacy...

  2. Cultural Algorithm Toolkit for Interactive Knowledge Discovery

    Directory of Open Access Journals (Sweden)

    Sujatha Srinivasa

    2012-10-01

    Full Text Available Cultural algorithms (CA are inspired from the cultural evolutionary process in nature and use socialintelligence to solve problems. Cultural algorithms are composed of a belief space which uses differentknowledge sources, a population space and a protocol that enables exchange of knowledge between thesesources. Knowledge created in the population space is accepted into the belief space while this collectiveknowledge from these sources is combined to influence the decisions of the individual agents in solvingproblems. Classification rules comes under descriptive knowledge discovery in data mining and are themost sought out by users since they represent highly comprehensible form of knowledge. The rules havecertain properties which make them useful forms of actionable knowledge to users. The rules are evaluatedusing these properties represented as objective and subjective measures. Objective measures are problemoriented while subjective measures are more user oriented. Evolutionary systems allow the user toincorporate different rule metrics into the solution of a multi objective rule mining problem. However thealgorithms found in the literature allow only certain attributes of the system to be controlled by the user.Research gap exists in providing a complete user controlled system to experiment with evolutionary multiobjective classification rule mining. In the current study a Cultural Algorithm Toolkit for ClassificationRule Mining (CAT-CRM is proposed which allows the user to control three different set of parameters.CAT-CRM allows the user to control the evolutionary parameters, the rule parameters as well as agentparameters and hence can be used for experimenting with an evolutionary system, a rule mining system oran agent based social system. Results of experiments conducted to observe the effect of different crossoverrates and mutation rates on classification accuracy on a bench mark data set is reported.

  3. Analysis of the Toolkit method for the time-dependant Schr\\"odinger equation

    CERN Document Server

    Baudouin, Lucie; Turinici, Gabriel

    2009-01-01

    The goal of this paper is to provide an analysis of the ``toolkit'' method used in the numerical approximation of the time-dependent Schr\\"odinger equation. The ``toolkit'' method is based on precomputation of elementary propagators and was seen to be very efficient in the optimal control framework. Our analysis shows that this method provides better results than the second order Strang operator splitting. In addition, we present two improvements of the method in the limit of low and large intensity control fields.

  4. Analysis of the Toolkit method for the time-dependant Schr\\"odinger equation

    CERN Document Server

    Baudouin, Lucie; Turinici, Gabriel

    2010-01-01

    The goal of this paper is to provide an analysis of the "toolkit" method used in the numerical approximation of the time-dependent Schr\\"odinger equation. The "toolkit" method is based on precomputation of elementary propagators and was seen to be very efficient in the optimal control framework. Our analysis shows that this method provides better results than the second order Strang operator splitting. In addition, we present two improvements of the method in the limit of low and large intensity control fields.

  5. A methodological toolkit for field assessments of artisanally mined alluvial diamond deposits

    Science.gov (United States)

    Chirico, Peter G.; Malpeli, Katherine C.

    2014-01-01

    This toolkit provides a standardized checklist of critical issues relevant to artisanal mining-related field research. An integrated sociophysical geographic approach to collecting data at artisanal mine sites is outlined. The implementation and results of a multistakeholder approach to data collection, carried out in the assessment of Guinea’s artisanally mined diamond deposits, also are summarized. This toolkit, based on recent and successful field campaigns in West Africa, has been developed as a reference document to assist other government agencies or organizations in collecting the data necessary for artisanal diamond mining or similar natural resource assessments.

  6. DUL Radio: A light-weight, wireless toolkit for sketching in hardware

    DEFF Research Database (Denmark)

    Brynskov, Martin; Lunding, Rasmus; Vestergaard, Lasse Steenbock

    2011-01-01

    In this paper we present the first version of DUL Radio, a small, wireless toolkit for sketching sensor-based interaction. It is a concrete attempt to develop a platform that balances ease of use (learning, setup, initialization), size, speed, flexibility and cost, aimed at wearable and ultra......-mobile prototyping where fast reaction is needed (e.g. in controlling sound). The target audiences include designers, students, artists etc. with minimal programming and hardware skills. This presentation covers our motivations for creating the toolkit, specifications, test results, comparison to related products...

  7. 基于组件式GIS的犯罪热点分析工具研究和设计%Research and Design of Crime Hotspots Analytic Toolkit Based on GIS Component

    Institute of Scientific and Technical Information of China (English)

    王新猛; 李军

    2015-01-01

    我国警务情报工作虽然起步较晚,但在国家的大力支持和公安部的集中统一部署下,发展十分迅速,在机构设置、专业人才培养、运行机制以及物质技术保障等方面都取得了显著成效。在情报主导警务战略发展的大背景下,除了不断依托信息技术完善“信息”系统外,还要研究开发适合基层警务工作需求的专用软件。文章在分析犯罪热点研究现状的基础上,通过借鉴社会学、地理学、犯罪学等相关学科较为成熟的理论,来建构犯罪热点分析的基础理论体系,为犯罪热点专用分析工具的设计提供理论依据。然后对此工具的业务功能需求和应用数据需求进行分析,并在传统地图分析方法的指导下,采用Microsoft Visual Studio 2010作为开发工具,以SuperMap SDX+为数据引擎,开发基于组件式GIS的犯罪热点分析工具。通过不断完善功能,使其具有较大的应用推广价值,以期进一步提高基层警务机构防控犯罪的主动性和精确性,促使警务情报工作逐步向防控一线的警务人员普及应用。%Though China’s policing intelligence started relatively late, it acquired dramatically developing under the national’s support and Uniifed deployment of Public Security Department. Both the department of police information setting and professional ofifcer training prompted to advanced evolution as well as intelligence mechanism and technique support. In the context of Intelligence-led Policing, China’s policing intelligence should develop more professional software for practical ofifcer .The paper set forth an concept of crime hotspots analytic toolkit based analysis of practical demand and application environment. The GIS component of crime hotspots analytic toolkit also applied armature theory of sociology, geography and criminology into the design of the software, and considers Microsoft Visual Studio 2010 as main

  8. Field trials of a novel toolkit for evaluating 'intangible' values-related dimensions of projects.

    Science.gov (United States)

    Burford, Gemma; Velasco, Ismael; Janoušková, Svatava; Zahradnik, Martin; Hak, Tomas; Podger, Dimity; Piggot, Georgia; Harder, Marie K

    2013-02-01

    A novel toolkit has been developed, using an original approach to develop its components, for the purpose of evaluating 'soft' outcomes and processes that have previously been generally considered 'intangible': those which are specifically values based. This represents a step-wise, significant, change in provision for the assessment of values-based achievements that are of absolutely key importance to most civil society organisations (CSOs) and values-based businesses, and fills a known gap in evaluation practice. In this paper, we demonstrate the significance and rigour of the toolkit by presenting an evaluation of it in three diverse scenarios where different CSOs use it to co-evaluate locally relevant outcomes and processes to obtain results which are both meaningful to them and potentially comparable across organisations. A key strength of the toolkit is its original use of a prior generated, peer-elicited 'menu' of values-based indicators which provides a framework for user CSOs to localise. Principles of participatory, process-based and utilisation-focused evaluation are embedded in this toolkit and shown to be critical to its success, achieving high face-validity and wide applicability. The emerging contribution of this next-generation evaluation tool to other fields, such as environmental values, development and environmental sustainable development, shared values, business, education and organisational change is outlined. Copyright © 2012 Elsevier Ltd. All rights reserved.

  9. 78 FR 14774 - U.S. Environmental Solutions Toolkit-Universal Waste

    Science.gov (United States)

    2013-03-07

    ...: (a) Mercury Recycling Technology (b) E-Waste Recycling Technology (c) CRT Recycling Technology (d... International Trade Administration U.S. Environmental Solutions Toolkit--Universal Waste AGENCY: International... of universal waste. The Department of Commerce continues to develop the web-based U.S....

  10. DUL Radio: A light-weight, wireless toolkit for sketching in hardware

    DEFF Research Database (Denmark)

    Brynskov, Martin; Lunding, Rasmus; Vestergaard, Lasse Steenbock

    2011-01-01

    In this paper we present the first version of DUL Radio, a small, wireless toolkit for sketching sensor-based interaction. It is a concrete attempt to develop a platform that balances ease of use (learning, setup, initialization), size, speed, flexibility and cost, aimed at wearable and ultra...

  11. Development of medical engagement training toolkits to support special operations military assistance programs in austere environments.

    Science.gov (United States)

    Boedeker, Ben H; Boedeker, David; Tate, Charmaine

    2012-01-01

    The Medical Seminar (MEDSEM) is a medical operation that shares culturally appropriate medical information with a defined indigenous population based upon a "train the trainer" concept. This work describes the development of a hand washing training toolkit designed to support a MEDSEM action in Afghanistan.

  12. The Sense-It App: A Smartphone Sensor Toolkit for Citizen Inquiry Learning

    Science.gov (United States)

    Sharples, Mike; Aristeidou, Maria; Villasclaras-Fernández, Eloy; Herodotou, Christothea; Scanlon, Eileen

    2017-01-01

    The authors describe the design and formative evaluation of a sensor toolkit for Android smartphones and tablets that supports inquiry-based science learning. The Sense-it app enables a user to access all the motion, environmental and position sensors available on a device, linking these to a website for shared crowd-sourced investigations. The…

  13. PreSurgMapp: a MATLAB Toolbox for Presurgical Mapping of Eloquent Functional Areas Based on Task-Related and Resting-State Functional MRI.

    Science.gov (United States)

    Huang, Huiyuan; Ding, Zhongxiang; Mao, Dewang; Yuan, Jianhua; Zhu, Fangmei; Chen, Shuda; Xu, Yan; Lou, Lin; Feng, Xiaoyan; Qi, Le; Qiu, Wusi; Zhang, Han; Zang, Yu-Feng

    2016-10-01

    The main goal of brain tumor surgery is to maximize tumor resection while minimizing the risk of irreversible postoperative functional sequelae. Eloquent functional areas should be delineated preoperatively, particularly for patients with tumors near eloquent areas. Functional magnetic resonance imaging (fMRI) is a noninvasive technique that demonstrates great promise for presurgical planning. However, specialized data processing toolkits for presurgical planning remain lacking. Based on several functions in open-source software such as Statistical Parametric Mapping (SPM), Resting-State fMRI Data Analysis Toolkit (REST), Data Processing Assistant for Resting-State fMRI (DPARSF) and Multiple Independent Component Analysis (MICA), here, we introduce an open-source MATLAB toolbox named PreSurgMapp. This toolbox can reveal eloquent areas using comprehensive methods and various complementary fMRI modalities. For example, PreSurgMapp supports both model-based (general linear model, GLM, and seed correlation) and data-driven (independent component analysis, ICA) methods and processes both task-based and resting-state fMRI data. PreSurgMapp is designed for highly automatic and individualized functional mapping with a user-friendly graphical user interface (GUI) for time-saving pipeline processing. For example, sensorimotor and language-related components can be automatically identified without human input interference using an effective, accurate component identification algorithm using discriminability index. All the results generated can be further evaluated and compared by neuro-radiologists or neurosurgeons. This software has substantial value for clinical neuro-radiology and neuro-oncology, including application to patients with low- and high-grade brain tumors and those with epilepsy foci in the dominant language hemisphere who are planning to undergo a temporal lobectomy.

  14. A toolkit for detecting technical surprise.

    Energy Technology Data Exchange (ETDEWEB)

    Trahan, Michael Wayne; Foehse, Mark C.

    2010-10-01

    The detection of a scientific or technological surprise within a secretive country or institute is very difficult. The ability to detect such surprises would allow analysts to identify the capabilities that could be a military or economic threat to national security. Sandia's current approach utilizing ThreatView has been successful in revealing potential technological surprises. However, as data sets become larger, it becomes critical to use algorithms as filters along with the visualization environments. Our two-year LDRD had two primary goals. First, we developed a tool, a Self-Organizing Map (SOM), to extend ThreatView and improve our understanding of the issues involved in working with textual data sets. Second, we developed a toolkit for detecting indicators of technical surprise in textual data sets. Our toolkit has been successfully used to perform technology assessments for the Science & Technology Intelligence (S&TI) program.

  15. Optical Modeling Activities for NASA's James Webb Space Telescope (JWST). 4; Overview and Introduction of Matlab Based Toolkits used to Interface with Optical Design Software

    Science.gov (United States)

    Howard, Joseph

    2007-01-01

    This is part four of a series on the ongoing optical modeling activities for James Webb Space Telescope (JWST). The first two discussed modeling JWST on-orbit performance using wavefront sensitivities to predict line of sight motion induced blur, and stability during thermal transients. The third investigates the aberrations resulting from alignment and figure compensation of the controllable degrees of freedom (primary and secondary mirrors), which may be encountered during ground alignment and on-orbit commissioning of the observatory. The work here introduces some of the math software tools used to perform the work of the previous three papers of this series. NASA has recently approved these in-house tools for public release as open source, so this presentation also serves as a quick tutorial on their use. The tools are collections of functions written in Matlab, which interface with optical design software (CodeV, OSLO, and Zemax) using either COM or DDE communication protocol. The functions are discussed, and examples are given.

  16. SIERRA Toolkit v. 2.0

    Energy Technology Data Exchange (ETDEWEB)

    2016-09-14

    The SIERRA Toolkit is a collection of libraries to facilitate the development of parallel engineering analysis applications. These libraries supply basic core services that an engineering application may need such as a parallel distributed and dynamic mesh database (for unstructured meshes), mechanics algorithm support (parallel infrastructure only), interfaces to parallel solvers, parallel mesh and data I/O, and various utilities (timers, diagnostic tools, etc.)

  17. Application experiences with the Globus toolkit.

    Energy Technology Data Exchange (ETDEWEB)

    Brunett, S.

    1998-06-09

    The Globus grid toolkit is a collection of software components designed to support the development of applications for high-performance distributed computing environments, or ''computational grids'' [14]. The Globus toolkit is an implementation of a ''bag of services'' architecture, which provides application and tool developers not with a monolithic system but rather with a set of stand-alone services. Each Globus component provides a basic service, such as authentication, resource allocation, information, communication, fault detection, and remote data access. Different applications and tools can combine these services in different ways to construct ''grid-enabled'' systems. The Globus toolkit has been used to construct the Globus Ubiquitous Supercomputing Testbed, or GUSTO: a large-scale testbed spanning 20 sites and included over 4000 compute nodes for a total compute power of over 2 TFLOPS. Over the past six months, we and others have used this testbed to conduct a variety of application experiments, including multi-user collaborative environments (tele-immersion), computational steering, distributed supercomputing, and high throughput computing. The goal of this paper is to review what has been learned from these experiments regarding the effectiveness of the toolkit approach. To this end, we describe two of the application experiments in detail, noting what worked well and what worked less well. The two applications are a distributed supercomputing application, SF-Express, in which multiple supercomputers are harnessed to perform large distributed interactive simulations; and a tele-immersion application, CAVERNsoft, in which the focus is on connecting multiple people to a distributed simulated world.

  18. A plasmid toolkit for cloning chimeric cDNAs encoding customized fusion proteins into any Gateway destination expression vector.

    Science.gov (United States)

    Buj, Raquel; Iglesias, Noa; Planas, Anna M; Santalucía, Tomàs

    2013-08-20

    Valuable clone collections encoding the complete ORFeomes for some model organisms have been constructed following the completion of their genome sequencing projects. These libraries are based on Gateway cloning technology, which facilitates the study of protein function by simplifying the subcloning of open reading frames (ORF) into any suitable destination vector. The expression of proteins of interest as fusions with functional modules is a frequent approach in their initial functional characterization. A limited number of Gateway destination expression vectors allow the construction of fusion proteins from ORFeome-derived sequences, but they are restricted to the possibilities offered by their inbuilt functional modules and their pre-defined model organism-specificity. Thus, the availability of cloning systems that overcome these limitations would be highly advantageous. We present a versatile cloning toolkit for constructing fully-customizable three-part fusion proteins based on the MultiSite Gateway cloning system. The fusion protein components are encoded in the three plasmids integral to the kit. These can recombine with any purposely-engineered destination vector that uses a heterologous promoter external to the Gateway cassette, leading to the in-frame cloning of an ORF of interest flanked by two functional modules. In contrast to previous systems, a third part becomes available for peptide-encoding as it no longer needs to contain a promoter, resulting in an increased number of possible fusion combinations. We have constructed the kit's component plasmids and demonstrate its functionality by providing proof-of-principle data on the expression of prototype fluorescent fusions in transiently-transfected cells. We have developed a toolkit for creating fusion proteins with customized N- and C-term modules from Gateway entry clones encoding ORFs of interest. Importantly, our method allows entry clones obtained from ORFeome collections to be used without prior

  19. Web-based toolkits for topology prediction of transmembrane helical proteins, fold recognition, structure and binding scoring, folding-kinetics analysis and comparative analysis of domain combinations.

    Science.gov (United States)

    Zhou, Hongyi; Zhang, Chi; Liu, Song; Zhou, Yaoqi

    2005-07-01

    We have developed the following web servers for protein structural modeling and analysis at http://theory.med.buffalo.edu: THUMBUP, UMDHMM(TMHP) and TUPS, predictors of transmembrane helical protein topology based on a mean-burial-propensity scale of amino acid residues (THUMBUP), hidden Markov model (UMDHMM(TMHP)) and their combinations (TUPS); SPARKS 2.0 and SP3, two profile-profile alignment methods, that match input query sequence(s) to structural templates by integrating sequence profile with knowledge-based structural score (SPARKS 2.0) and structure-derived profile (SP3); DFIRE, a knowledge-based potential for scoring free energy of monomers (DMONOMER), loop conformations (DLOOP), mutant stability (DMUTANT) and binding affinity of protein-protein/peptide/DNA complexes (DCOMPLEX & DDNA); TCD, a program for protein-folding rate and transition-state analysis of small globular proteins; and DOGMA, a web-server that allows comparative analysis of domain combinations between plant and other 55 organisms. These servers provide tools for prediction and/or analysis of proteins on the secondary structure, tertiary structure and interaction levels, respectively.

  20. An Overview of the Geant4 Toolkit

    Science.gov (United States)

    Apostolakis, John; Wright, Dennis H.

    2007-03-01

    Geant4 is a toolkit for the simulation of the transport of radiation through matter. With a flexible kernel and choices between different physics modeling choices, it has been tailored to the requirements of a wide range of applications. With the toolkit a user can describe a setup's or detector's geometry and materials, navigate inside it, simulate the physical interactions using a choice of physics engines, underlying physics cross-sections and models, visualise and store results. Physics models describing electromagnetic and hadronic interactions are provided, as are decays and processes for optical photons. Several models, with different precision and performance are available for many processes. The toolkit includes coherent physics model configurations, which are called physics lists. Users can choose an existing physics list or create their own, depending on their requirements and the application area. A clear structure and readable code, enable the user to investigate the origin of physics results. Application areas include detector simulation and background simulation in High Energy Physics experiments, simulation of accelerator setups, studies in medical imaging and treatment, and the study of the effects of solar radiation on spacecraft instruments.

  1. A Racial Equity Toolkit for Midwifery Organizations.

    Science.gov (United States)

    Gordon, Wendy M

    2016-11-01

    Midwifery associations are increasing awareness and commitment to racial equity in the profession and in the communities we serve. Moving these commitments from words into action may be facilitated by a racial equity toolkit to help guide midwifery organizations to consider all policies, initiatives, and actions with a racial equity lens. Racial equity impact analyses have been used in recent years by various governmental agencies in the United States and abroad with positive results, and emerging literature indicates that nonprofit organizations are having similarly positive results. This article proposes a framework for midwifery organizations to incorporate a racial equity toolkit, starting with explicit intentions of the organization with regard to racial equity in the profession. Indicators of success are elucidated as the next step, followed by the use of a racial equity impact analysis worksheet. This worksheet is applied by teams or committees when considering new policies or initiatives to examine those actions through a racial equity lens. An organizational change team and equity advisory groups are essential in assisting organizational leadership to forecast potential negative and positive impacts. Examples of the components of a midwifery-specific racial equity toolkit are included. © 2016 by the American College of Nurse-Midwives.

  2. Model Analysis ToolKit

    Energy Technology Data Exchange (ETDEWEB)

    2015-05-15

    MATK provides basic functionality to facilitate model analysis within the Python computational environment. Model analysis setup within MATK includes: - define parameters - define observations - define model (python function) - define samplesets (sets of parameter combinations) Currently supported functionality includes: - forward model runs - Latin-Hypercube sampling of parameters - multi-dimensional parameter studies - parallel execution of parameter samples - model calibration using internal Levenberg-Marquardt algorithm - model calibration using lmfit package - model calibration using levmar package - Markov Chain Monte Carlo using pymc package MATK facilitates model analysis using: - scipy - calibration (scipy.optimize) - rpy2 - Python interface to R

  3. Prioritising risk pathways of complex human diseases based on functional profiling.

    Science.gov (United States)

    Li, Yan; Huang, Teng; Xiao, Yun; Ning, Shangwei; Wang, Peng; Wang, Qianghu; Chen, Xin; Chaohan, Xu; Sun, Donglin; Li, Xia; Li, Yixue

    2013-06-01

    Analysis of the biological pathways involved in complex human diseases is an important step in elucidating the pathogenesis and mechanism of diseases. Most pathway analysis approaches identify disease-related biological pathways using overlapping genes between pathways and diseases. However, these approaches ignore the functional biological association between pathways and diseases. In this paper, we designed a novel computational framework for prioritising disease-risk pathways based on functional profiling. The disease gene set and biological pathways were translated into functional profiles in the context of GO annotations. We then implemented a semantic similarity measurement for calculating the concordance score between a functional profile of disease genes and a functional profile of pathways (FPP); the concordance score was then used to prioritise and infer disease-risk pathways. A freely accessible web toolkit, 'Functional Profiling-based Pathway Prioritisation' (FPPP), was developed (http://bioinfo.hrbmu.edu.cn/FPPP). During validation, our method successfully identified known disease-pathway pairs with area under the ROC curve (AUC) values of 96.73 and 95.02% in tests using both pathway randomisation and disease randomisation. A robustness analysis showed that FPPP is reliable even when using data containing noise. A case study based on a dilated cardiomyopathy data set indicated that the high-ranking pathways from FPPP are well known to be linked with this disease. Furthermore, we predicted the risk pathways of 413 diseases by using FPPP to build a disease similarity landscape that systematically reveals the global modular organisation of disease associations.

  4. Managing Fieldwork Data with Toolbox and the Natural Language Toolkit

    Directory of Open Access Journals (Sweden)

    Stuart Robinson

    2007-06-01

    Full Text Available This paper shows how fieldwork data can be managed using the program Toolbox together with the Natural Language Toolkit (NLTK for the Python programming language. It provides background information about Toolbox and describes how it can be downloaded and installed. The basic functionality of the program for lexicons and texts is described, and its strengths and weaknesses are reviewed. Its underlying data format is briefly discussed, and Toolbox processing capabilities of NLTK are introduced, showing ways in which it can be used to extend the functionality of Toolbox. This is illustrated with a few simple scripts that demonstrate basic data management tasks relevant to language documentation, such as printing out the contents of a lexicon as HTML.

  5. Network-based functional enrichment

    Directory of Open Access Journals (Sweden)

    Poirel Christopher L

    2011-11-01

    Full Text Available Abstract Background Many methods have been developed to infer and reason about molecular interaction networks. These approaches often yield networks with hundreds or thousands of nodes and up to an order of magnitude more edges. It is often desirable to summarize the biological information in such networks. A very common approach is to use gene function enrichment analysis for this task. A major drawback of this method is that it ignores information about the edges in the network being analyzed, i.e., it treats the network simply as a set of genes. In this paper, we introduce a novel method for functional enrichment that explicitly takes network interactions into account. Results Our approach naturally generalizes Fisher’s exact test, a gene set-based technique. Given a function of interest, we compute the subgraph of the network induced by genes annotated to this function. We use the sequence of sizes of the connected components of this sub-network to estimate its connectivity. We estimate the statistical significance of the connectivity empirically by a permutation test. We present three applications of our method: i determine which functions are enriched in a given network, ii given a network and an interesting sub-network of genes within that network, determine which functions are enriched in the sub-network, and iii given two networks, determine the functions for which the connectivity improves when we merge the second network into the first. Through these applications, we show that our approach is a natural alternative to network clustering algorithms. Conclusions We presented a novel approach to functional enrichment that takes into account the pairwise relationships among genes annotated by a particular function. Each of the three applications discovers highly relevant functions. We used our methods to study biological data from three different organisms. Our results demonstrate the wide applicability of our methods. Our algorithms are

  6. Participatory Design and Development of a Patient-centered Toolkit to Engage Hospitalized Patients and Care Partners in their Plan of Care.

    Science.gov (United States)

    Dykes, Patricia C; Stade, Diana; Chang, Frank; Dalal, Anuj; Getty, George; Kandala, Ravali; Lee, Jaeho; Lehman, Lisa; Leone, Kathleen; Massaro, Anthony F; Milone, Marsha; McNally, Kelly; Ohashi, Kumiko; Robbins, Katherine; Bates, David W; Collins, Sarah

    2014-01-01

    Patient engagement has been identified as a key strategy for improving patient outcomes. In this paper, we describe the development and pilot testing of a web-based patient centered toolkit (PCTK) prototype to improve access to health information and to engage hospitalized patients and caregivers in the plan of care. Individual and group interviews were used to identify plan of care functional and workflow requirements and user interface design enhancements. Qualitative methods within a participatory design approach supported the development of a PCTK prototype that will be implemented on intensive care and oncology units to engage patients and professional care team members developing their plan of care during an acute hospitalization.

  7. A general framework for a reliable multivariate analysis and pattern recognition in high-dimensional epidemiological data, based on cluster robustness: a tutorial to enrich the epidemiologists' toolkit.

    Science.gov (United States)

    Lefèvre, T; Chauvin, P

    2015-02-01

    In an epidemiologist's toolbox, three main types of statistical tools can be found: means and proportions comparisons, linear or logistic regression models and Cox-type regression models. All these techniques have their own multivariate formulations, so that biases can be accounted for. Nonetheless, there is an entire set of natively massive multivariate techniques, which are based on weaker assumptions than classical statistical techniques are, and which seem to be underestimated or remain unknown to most epidemiologists. These techniques are used for pattern recognition or clustering – that is, for retrieving homogeneous groups in data without any a priori about these groups. They are widely used in connex domains such as genetics or biomolecular studies. Most clustering techniques require tuning specific parameters so that groups can be identified in data. A critical parameter to set is the number of groups the technique needs to discover. Different approaches to find the optimal number of groups are available, such as the silhouette approach and the robustness approach. This article presents the key aspects of clustering techniques (how proximity between observations is defined and how to find the number of groups), two archetypal techniques (namely the k-means and PAM algorithms) and how they relate to more classical statistical approaches. Through a theoretical, simple example and a real data application, we provide a complete framework within which classical epidemiological concerns can be reconsidered. We show how to (i) identify whether distinct groups exist in data, (ii) identify the optimal number of groups in data, (iii) label each observation according to its own group and (iv) analyze the groups identified according to separate and explicative data. In addition, how to achieve consistent results while removing sensitivity to initial conditions is explained. Clustering techniques, in conjunction with methods for parameter tuning, provide the

  8. Tailored prevention of inpatient falls: development and usability testing of the fall TIPS toolkit.

    Science.gov (United States)

    Zuyev, Lyubov; Benoit, Angela N; Chang, Frank Y; Dykes, Patricia C

    2011-02-01

    Patient falls and fall-related injuries are serious problems in hospitals. The Fall TIPS application aims to prevent patient falls by translating routine nursing fall risk assessment into a decision support intervention that communicates fall risk status and creates a tailored evidence-based plan of care that is accessible to the care team, patients, and family members. In our design and implementation of the Fall TIPS toolkit, we used the Spiral Software Development Life Cycle model. Three output tools available to be generated from the toolkit are bed poster, plan of care, and patient education handout. A preliminary design of the application was based on initial requirements defined by project leaders and informed by focus groups with end users. Preliminary design partially simulated the paper version of the Morse Fall Scale currently used in hospitals involved in the research study. Strengths and weaknesses of the first prototype were identified by heuristic evaluation. Usability testing was performed at sites where research study is implemented. Suggestions mentioned by end users participating in usability studies were either directly incorporated into the toolkit and output tools, were slightly modified, or will be addressed during training. The next step is implementation of the fall prevention toolkit on the pilot testing units.

  9. The Molecular Biology Toolkit (MBT: a modular platform for developing molecular visualization applications

    Directory of Open Access Journals (Sweden)

    Zhang Qing

    2005-02-01

    Full Text Available Abstract Background The large amount of data that are currently produced in the biological sciences can no longer be explored and visualized efficiently with traditional, specialized software. Instead, new capabilities are needed that offer flexibility, rapid application development and deployment as standalone applications or available through the Web. Results We describe a new software toolkit – the Molecular Biology Toolkit (MBT; http://mbt.sdsc.edu – that enables fast development of applications for protein analysis and visualization. The toolkit is written in Java, thus offering platform-independence and Internet delivery capabilities. Several applications of the toolkit are introduced to illustrate the functionality that can be achieved. Conclusions The MBT provides a well-organized assortment of core classes that provide a uniform data model for the description of biological structures and automate most common tasks associated with the development of applications in the molecular sciences (data loading, derivation of typical structural information, visualization of sequence and standard structural entities.

  10. Microcontroller-Based Function Generator

    Directory of Open Access Journals (Sweden)

    Ammar I. Abdullah

    2008-01-01

    Full Text Available This paper describes a microcontroller-based function generator system. By the function generator sine wave, square wave, quasi-square wave, saw-tooth and triangular waveforms are generated over a wide frequency range according to user requirements. By utilizing processing capabilities of the microcontroller the hardware is minimized exceedingly. The output waveform shapes are digitally-controlled to achieve the required wave shape. The single chip microcomputer of waveform generation equipment offers the possibility of improvements in manufacture reliability, maintenance and servicing and increased control flexibility. The system is built and tested. The results of test were satisfactory and appreciated by test engineers at different centers of ministry of communications.

  11. The Liquid Argon Software Toolkit (LArSoft): Goals, Status and Plan

    Energy Technology Data Exchange (ETDEWEB)

    Pordes, Rush [Fermilab; Snider, Erica [Fermilab

    2016-08-17

    LArSoft is a toolkit that provides a software infrastructure and algorithms for the simulation, reconstruction and analysis of events in Liquid Argon Time Projection Chambers (LArTPCs). It is used by the ArgoNeuT, LArIAT, MicroBooNE, DUNE (including 35ton prototype and ProtoDUNE) and SBND experiments. The LArSoft collaboration provides an environment for the development, use, and sharing of code across experiments. The ultimate goal is to develop fully automatic processes for reconstruction and analysis of LArTPC events. The toolkit is based on the art framework and has a well-defined architecture to interface to other packages, including to GEANT4 and GENIE simulation software and the Pandora software development kit for pattern recognition. It is designed to facilitate and support the evolution of algorithms including their transition to new computing platforms. The development of the toolkit is driven by the scientific stakeholders involved. The core infrastructure includes standard definitions of types and constants, means to input experiment geometries as well as meta and event- data in several formats, and relevant general utilities. Examples of algorithms experiments have contributed to date are: photon-propagation; particle identification; hit finding, track finding and fitting; electromagnetic shower identification and reconstruction. We report on the status of the toolkit and plans for future work.

  12. Migration of 1970s Minicomputer Controls to Modern Toolkit Software

    Energy Technology Data Exchange (ETDEWEB)

    Juras, R.C.; Meigs, M.J.; Sinclair, J.A.; Tatum, B.A.

    1999-11-13

    Controls for accelerators and associated systems at the Holifield Radioactive Ion Beam Facility (HRIBF) at Oak Ridge National Laboratory have been migrated from 197Os-vintage minicomputers to a modern system based on Vista and EPICS toolkit software. Stability and capabilities of EPICS software have motivated increasing use of EPICS for accelerator controls. In addition, very inexpensive subsystems based on EPICS and the EPICS portable CA server running on Linux PCs have been implemented to control an ion source test facility and to control a building-access badge reader system. A new object-oriented, extensible display manager has been developed for EPICS to facilitate the transition to EPICS and will be used in place of MEDM. EPICS device support has been developed for CAMAC serial highway controls.

  13. Upgrading the safety toolkit: Initiatives of the accident analysis subgroup

    Energy Technology Data Exchange (ETDEWEB)

    O' Kula, K.R.; Chung, D.Y.

    1999-07-01

    Since its inception, the Accident Analysis Subgroup (AAS) of the Energy Facility Contractors Group (EFCOG) has been a leading organization promoting development and application of appropriate methodologies for safety analysis of US Department of Energy (DOE) installations. The AAS, one of seven chartered by the EFCOG Safety Analysis Working Group, has performed an oversight function and provided direction to several technical groups. These efforts have been instrumental toward formal evaluation of computer models, improving the pedigree on high-use computer models, and development of the user-friendly Accident Analysis Guidebook (AAG). All of these improvements have improved the analytical toolkit for best complying with DOE orders and standards shaping safety analysis reports (SARs) and related documentation. Major support for these objectives has been through DOE/DP-45.

  14. Microsoft BizTalk ESB Toolkit 2.1

    CERN Document Server

    Benito, Andrés Del Río

    2013-01-01

    A practical guide into the architecture and features that make up the services and components of the ESB Toolkit.This book is for experienced BizTalk developers, administrators, and architects, as well as IT managers and BizTalk business analysts. Knowledge and experience with the Toolkit is not a requirement.

  15. Livermore Big Artificial Neural Network Toolkit

    Energy Technology Data Exchange (ETDEWEB)

    2016-07-01

    LBANN is a toolkit that is designed to train artificial neural networks efficiently on high performance computing architectures. It is optimized to take advantages of key High Performance Computing features to accelerate neural network training. Specifically it is optimized for low-latency, high bandwidth interconnects, node-local NVRAM, node-local GPU accelerators, and high bandwidth parallel file systems. It is built on top of the open source Elemental distributed-memory dense and spars-direct linear algebra and optimization library that is released under the BSD license. The algorithms contained within LBANN are drawn from the academic literature and implemented to work within a distributed-memory framework.

  16. National eHealth strategy toolkit

    CERN Document Server

    2012-01-01

    Worldwide the application of information and communication technologies to support national health-care services is rapidly expanding and increasingly important. This is especially so at a time when all health systems face stringent economic challenges and greater demands to provide more and better care especially to those most in need. The National eHealth Strategy Toolkit is an expert practical guide that provides governments their ministries and stakeholders with a solid foundation and method for the development and implementation of a national eHealth vision action plan and monitoring fram

  17. Montage: An Astronomical Image Mosaicking Toolkit

    Science.gov (United States)

    Jacob, Joseph C.; Katz, Daniel S.; Berriman, G. Bruce; Good, John; Laity, Anastasia C.; Deelman, Ewa; Kesselman, Carl; Singh, Gurmeet; Su, Mei-Hui; Prince, Thomas A.; Williams, Roy

    2010-10-01

    Montage is an open source code toolkit for assembling Flexible Image Transport System (FITS) images into custom mosaics. It runs on all common Linux/Unix platforms, on desktops, clusters and computational grids, and supports all World Coordinate System (WCS) projections and common coordinate systems. Montage preserves spatial and calibration fidelity of input images, processes 40 million pixels in up to 32 minutes on 128 nodes on a Linux cluster, and provides independent engines for analyzing the geometry of images on the sky, re-projecting images, rectifying background emission to a common level, and co-adding images. It offers convenient tools for managing and manipulating large image files.

  18. 基于Pro/Toolkit二次开发的齿轮参数化CAD系统%CAD System of Gears Parametric Design Based on Secondary Development of Pro/Toolkit

    Institute of Scientific and Technical Information of China (English)

    钟山; 李继荣

    2007-01-01

    采用三维CAD软件Pro/E的开发平台和二次开发模块Pro/Toolkit,在c++开发环境下对渐开线齿轮进行参数化设计,通过利用友好的图形用户界面技术输入设计参数来控制三维实体建模.该文以开发渐开线齿轮参数化CAD系统为实例,详细阐述基于Pro/Toolkit二次开发程序设计的实现过程.

  19. The nanomaterial toolkit for neuroengineering

    Science.gov (United States)

    Shah, Shreyas

    2016-10-01

    There is a growing interest in developing effective tools to better probe the central nervous system (CNS), to understand how it works and to treat neural diseases, injuries and cancer. The intrinsic complexity of the CNS has made this a challenging task for decades. Yet, with the extraordinary recent advances in nanotechnology and nanoscience, there is a general consensus on the immense value and potential of nanoscale tools for engineering neural systems. In this review, an overview of specialized nanomaterials which have proven to be the most effective tools in neuroscience is provided. After a brief background on the prominent challenges in the field, a variety of organic and inorganic-based nanomaterials are described, with particular emphasis on the distinctive properties that make them versatile and highly suitable in the context of the CNS. Building on this robust nano-inspired foundation, the rational design and application of nanomaterials can enable the generation of new methodologies to greatly advance the neuroscience frontier.

  20. A personal health information toolkit for health intervention research.

    Science.gov (United States)

    Kizakevich, Paul N; Eckhoff, Randall; Weger, Stacey; Weeks, Adam; Brown, Janice; Bryant, Stephanie; Bakalov, Vesselina; Zhang, Yuying; Lyden, Jennifer; Spira, James

    2014-01-01

    With the emergence of mobile health (mHealth) apps, there is a growing demand for better tools for developing and evaluating mobile health interventions. Recently we developed the Personal Health Intervention Toolkit (PHIT), a software framework which eases app implementation and facilitates scientific evaluation. PHIT integrates self-report and physiological sensor instruments, evidence-based advisor logic, and self-help interventions such as meditation, health education, and cognitive behavior change. PHIT can be used to facilitate research, interventions for chronic diseases, risky behaviors, sleep, medication adherence, environmental monitoring, momentary data collection health screening, and clinical decision support. In a series of usability evaluations, participants reported an overall usability score of 4.5 on a 1-5 Likert scale and an 85 score on the System Usability Scale, indicating a high percentile rank of 95%.

  1. ADMIT: The ALMA Data Mining Toolkit

    Science.gov (United States)

    Teuben, P.; Pound, M.; Mundy, L.; Rauch, K.; Friedel, D.; Looney, L.; Xu, L.; Kern, J.

    2015-09-01

    ADMIT (ALMA Data Mining ToolkiT), a toolkit for the creation of new science products from ALMA data, is being developed as an ALMA Development Project. It is written in Python and, while specifically targeted for a uniform analysis of the ALMA science products that come out of the ALMA pipeline, it is designed to be generally applicable to (radio) astronomical data. It first provides users with a detailed view of their science products created by ADMIT inside the ALMA pipeline: line identifications, line ‘cutout' cubes, moment maps, emission type analysis (e.g., feature detection). Using descriptor vectors the ALMA data archive is enriched with useful information to make archive data mining possible. Users can also opt to download the (small) ADMIT pipeline product, then fine-tune and re-run the pipeline and inspect their hopefully improved data. By running many projects in a parallel fashion, data mining between many astronomical sources and line transitions will also be possible. Future implementations of ADMIT may include EVLA and other instruments.

  2. MIS: A MIRIAD Interferometry Singledish Toolkit

    Science.gov (United States)

    Pound, M. W.; Teuben, P.

    2012-09-01

    Building on the “drPACS” contribution at ADASS XX of a simple Unix pipeline infrastructure, we implemented a pipeline toolkit using the package MIRIAD to combine Interferometric and Single Dish data (MIS). This was prompted by our observations made with the Combined Array For Research in Millimeter-wave Astronomy (CARMA) interferometer of the star-forming region NGC 1333, a large survey highlighting the new 23-element and singledish observing modes. The project consists of 20 CARMA datasets each containing interferometric as well as simultaneously obtained single dish data, for 3 molecular spectral lines and continuum, in 527 different pointings, covering an area of about 8 by 11 arcminutes. A small group of collaborators then shared this toolkit and their parameters via CVS, and scripts were developed to ensure uniform data reduction across the group. The pipeline was run end-to-end each night as new observations were obtained, producing maps that contained all the data to date. We will show examples of the scripts and data products. This approach could serve as a model for repeated calibration and mapping of large mixed-mode correlation datasets from ALMA.

  3. The Virtual Physiological Human ToolKit.

    Science.gov (United States)

    Cooper, Jonathan; Cervenansky, Frederic; De Fabritiis, Gianni; Fenner, John; Friboulet, Denis; Giorgino, Toni; Manos, Steven; Martelli, Yves; Villà-Freixa, Jordi; Zasada, Stefan; Lloyd, Sharon; McCormack, Keith; Coveney, Peter V

    2010-08-28

    The Virtual Physiological Human (VPH) is a major European e-Science initiative intended to support the development of patient-specific computer models and their application in personalized and predictive healthcare. The VPH Network of Excellence (VPH-NoE) project is tasked with facilitating interaction between the various VPH projects and addressing issues of common concern. A key deliverable is the 'VPH ToolKit'--a collection of tools, methodologies and services to support and enable VPH research, integrating and extending existing work across Europe towards greater interoperability and sustainability. Owing to the diverse nature of the field, a single monolithic 'toolkit' is incapable of addressing the needs of the VPH. Rather, the VPH ToolKit should be considered more as a 'toolbox' of relevant technologies, interacting around a common set of standards. The latter apply to the information used by tools, including any data and the VPH models themselves, and also to the naming and categorizing of entities and concepts involved. Furthermore, the technologies and methodologies available need to be widely disseminated, and relevant tools and services easily found by researchers. The VPH-NoE has thus created an online resource for the VPH community to meet this need. It consists of a database of tools, methods and services for VPH research, with a Web front-end. This has facilities for searching the database, for adding or updating entries, and for providing user feedback on entries. Anyone is welcome to contribute.

  4. ParCAT: Parallel Climate Analysis Toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Smith, Brian E. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Steed, Chad A. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Shipman, Galen M. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Ricciuto, Daniel M. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Thornton, Peter E. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Wehner, Michael [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Williams, Dean N. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2013-01-01

    Climate science is employing increasingly complex models and simulations to analyze the past and predict the future of Earth s climate. This growth in complexity is creating a widening gap between the data being produced and the ability to analyze the datasets. Parallel computing tools are necessary to analyze, compare, and interpret the simulation data. The Parallel Climate Analysis Toolkit (ParCAT) provides basic tools to efficiently use parallel computing techniques to make analysis of these datasets manageable. The toolkit provides the ability to compute spatio-temporal means, differences between runs or differences between averages of runs, and histograms of the values in a data set. ParCAT is implemented as a command-line utility written in C. This allows for easy integration in other tools and allows for use in scripts. This also makes it possible to run ParCAT on many platforms from laptops to supercomputers. ParCAT outputs NetCDF files so it is compatible with existing utilities such as Panoply and UV-CDAT. This paper describes ParCAT and presents results from some example runs on the Titan system at ORNL.

  5. A Software Toolkit to Study Systematic Uncertainties of the Physics Models of the Geant4 Simulation Package

    Energy Technology Data Exchange (ETDEWEB)

    Genser, Krzysztof [Fermilab; Hatcher, Robert [Fermilab; Perdue, Gabriel [Fermilab; Wenzel, Hans [Fermilab; Yarba, Julia [Fermilab; Kelsey, Michael [SLAC; Wright, Dennis H. [SLAC

    2016-11-10

    The Geant4 toolkit is used to model interactions between particles and matter. Geant4 employs a set of validated physics models that span a wide range of interaction energies. These models are tuned to cover a large variety of possible applications. This raises the critical question of what uncertainties are associated with the Geant4 physics model, or group of models, involved in a simulation project. To address the challenge, we have designed and implemented a comprehen- sive, modular, user-friendly software toolkit that allows the variation of one or more parameters of one or more Geant4 physics models involved in simulation studies. It also enables analysis of multiple variants of the resulting physics observables of interest in order to estimate the uncertain- ties associated with the simulation model choices. Key functionalities of the toolkit are presented in this paper and are illustrated with selected results.

  6. A Software Toolkit to Study Systematic Uncertainties of the Physics Models of the Geant4 Simulation Package

    CERN Document Server

    Genser, Krzysztof; Perdue, Gabriel; Wenzel, Hans; Yarba, Julia; Kelsey, Michael; Wright, Dennis H

    2016-01-01

    The Geant4 toolkit is used to model interactions between particles and matter. Geant4 employs a set of validated physics models that span a wide range of interaction energies. These models are tuned to cover a large variety of possible applications. This raises the critical question of what uncertainties are associated with the Geant4 physics model, or group of models, involved in a simulation project. To address the challenge, we have designed and implemented a comprehen- sive, modular, user-friendly software toolkit that allows the variation of one or more parameters of one or more Geant4 physics models involved in simulation studies. It also enables analysis of multiple variants of the resulting physics observables of interest in order to estimate the uncertain- ties associated with the simulation model choices. Key functionalities of the toolkit are presented in this paper and are illustrated with selected results.

  7. A population-based randomized controlled trial of the effect of combining a pedometer with an intervention toolkit on physical activity among individuals with low levels of physical activity or fitness.

    Science.gov (United States)

    Petersen, Christina Bjørk; Severin, Maria; Hansen, Andreas Wolff; Curtis, Tine; Grønbæk, Morten; Tolstrup, Janne Schurmann

    2012-02-01

    To examine if receiving a pedometer along with an intervention toolkit is associated with increased physical activity, aerobic fitness and better self-rated health among individuals with low levels of physical activity or fitness. The intervention was nested in the Danish Health Examination Survey (DANHES) and carried out in 2008. Participants were randomly assigned to either a pedometer group (n=326) or a control group (n=329). Physical activity, aerobic fitness, and self-rated health were measured at baseline and at 3-month follow-up, and differences were tested by Wilcoxons signed rank tests and Chi-squared tests. At follow-up, no significant differences in physical activity, aerobic fitness and self-rated health were found between the groups. However, the oldest participants in the pedometer group reported significantly more walking time compared to the controls (controls=368 min/week, pedometer group=680 min/week, P=0.05). Among participants who completed the intervention, a significant effect on total walking time was observed (median difference=225 min/week, P=0.04). The results suggest that receiving a pedometer and along with an intervention toolkit can increase walking time in older individuals, but not in younger individuals. Thus, this type of intervention offers great potential for promoting physical activity in older individuals. NCT01071811. Copyright © 2011 Elsevier Inc. All rights reserved.

  8. 基于Pro/Toolkit的形位公差国标标注系统的二次开发%Research in Geometric Tolerance of GB Based on Pro/Toolkit Secondary Development

    Institute of Scientific and Technical Information of China (English)

    杨萍; 张明亮

    2012-01-01

    论述了在Pro/E Wildfire 4.0的环境下,利用VC++.Net技术和Pro/E二次开发工具Pro/Toolkit,通过动态连接库方式来实现形位公差标注的二次开发定制.并对其中所涉及到的菜单开发设计以及MFC对话框开发设计关键技术进行了研究,开发出符合国标且简单易用的形位公差标注插件.%The method by means of Dynamic Link Library to mark a geometric tolerances on drawing according to the needs of the customers ,under Pro/E Wildfire 4. 0 condition utilizing the technology of VC ++ . Net and the secondary developmental tool-Pro/Toolkit has been introduced in the paper. The key techniques to develop the menu and the dialog box of MFC also have been discussed and a simple plug - in of geometric tolerance according to Chinese standard have been obtained.

  9. 基于Pro/Toolkit的形位公差国标标注系统的二次开发%Secondary Development of the Annotated-System of GB Based on Geometric Tolerance of Pro/Toolkit

    Institute of Scientific and Technical Information of China (English)

    杨萍; 张明亮

    2012-01-01

    By means of Dynamic Link Library to mark a geometric tolerance on drawing according to the needs of the customers,under the condition of Pro/E Wildfire 4. 0,utilizing the technology of VC++. Net and the secondary developmental tool-Pro/Toolkit, the annotated system of GB is introduced. The key techniques to develop the menu and the dialog box of MFC are also discussed. A simple plug-in of geometric tolerance according to China national standards has been developed.%论述了在Pro/E Wildfire 4.0的环境下,利用VC++.Net技术和Pro/E二次开发工具Pro/Toolkit,通过动态连接库方式来实现形位公差标注的二次开发定制.并对其中所涉及到的菜单以及MFC对话框等关键技术进行了开发设计,研究出符合国标且简单易用的形位公差标注插件.

  10. Engineering control of bacterial cellulose production using a genetic toolkit and a new cellulose-producing strain.

    Science.gov (United States)

    Florea, Michael; Hagemann, Henrik; Santosa, Gabriella; Abbott, James; Micklem, Chris N; Spencer-Milnes, Xenia; de Arroyo Garcia, Laura; Paschou, Despoina; Lazenbatt, Christopher; Kong, Deze; Chughtai, Haroon; Jensen, Kirsten; Freemont, Paul S; Kitney, Richard; Reeve, Benjamin; Ellis, Tom

    2016-06-14

    Bacterial cellulose is a strong and ultrapure form of cellulose produced naturally by several species of the Acetobacteraceae Its high strength, purity, and biocompatibility make it of great interest to materials science; however, precise control of its biosynthesis has remained a challenge for biotechnology. Here we isolate a strain of Komagataeibacter rhaeticus (K. rhaeticus iGEM) that can produce cellulose at high yields, grow in low-nitrogen conditions, and is highly resistant to toxic chemicals. We achieved external control over its bacterial cellulose production through development of a modular genetic toolkit that enables rational reprogramming of the cell. To further its use as an organism for biotechnology, we sequenced its genome and demonstrate genetic circuits that enable functionalization and patterning of heterologous gene expression within the cellulose matrix. This work lays the foundations for using genetic engineering to produce cellulose-based materials, with numerous applications in basic science, materials engineering, and biotechnology.

  11. Functional analysis of OMICs data and small molecule compounds in an integrated "knowledge-based" platform.

    Science.gov (United States)

    Nikolsky, Yuri; Kirillov, Eugene; Zuev, Roman; Rakhmatulin, Eugene; Nikolskaya, Tatiana

    2009-01-01

    Analysis of microarray, SNPs, proteomics, and other high-throughput (OMICs) data is challenging because of its biological complexity and high level of technical and biological noise. One way to deal with both problems is to perform analysis with a high-fidelity annotated knowledge base of protein interactions, pathways, and functional ontologies. This knowledge base has to be structured in a computer-readable format and must include software tools for managing experimental data, analysis, and reporting. Here we present MetaDiscovery, an integrated platform for functional data analysis which is being developed at GeneGo for the past 8 years. On the content side, MetaDiscovery encompasses a comprehensive database of protein interactions of different types, pathways, network models and 10 functional ontologies covering human, mouse, and rat proteins. The analytical toolkit includes tools for gene/protein list enrichment analysis, statistical "interactome" tool for identification of over- and under-connected proteins in the data set, and a network module made up of network generation algorithms and filters. The suite also features MetaSearch, an application for combinatorial search of the database content, as well as a Java-based tool called MapEditor for drawing and editing custom pathway maps. Applications of MetaDiscovery include identification of potential biomarkers and drug targets, pathway hypothesis generation, analysis of biological effects for novel small molecule compounds, and clinical applications (analysis of large cohorts of patients and translational and personalized medicine).

  12. Windows .NET Network Distributed Basic Local Alignment Search Toolkit (W.ND-BLAST

    Directory of Open Access Journals (Sweden)

    Oliver Melvin J

    2005-04-01

    Full Text Available Abstract Background BLAST is one of the most common and useful tools for Genetic Research. This paper describes a software application we have termed Windows .NET Distributed Basic Local Alignment Search Toolkit (W.ND-BLAST, which enhances the BLAST utility by improving usability, fault recovery, and scalability in a Windows desktop environment. Our goal was to develop an easy to use, fault tolerant, high-throughput BLAST solution that incorporates a comprehensive BLAST result viewer with curation and annotation functionality. Results W.ND-BLAST is a comprehensive Windows-based software toolkit that targets researchers, including those with minimal computer skills, and provides the ability increase the performance of BLAST by distributing BLAST queries to any number of Windows based machines across local area networks (LAN. W.ND-BLAST provides intuitive Graphic User Interfaces (GUI for BLAST database creation, BLAST execution, BLAST output evaluation and BLAST result exportation. This software also provides several layers of fault tolerance and fault recovery to prevent loss of data if nodes or master machines fail. This paper lays out the functionality of W.ND-BLAST. W.ND-BLAST displays close to 100% performance efficiency when distributing tasks to 12 remote computers of the same performance class. A high throughput BLAST job which took 662.68 minutes (11 hours on one average machine was completed in 44.97 minutes when distributed to 17 nodes, which included lower performance class machines. Finally, there is a comprehensive high-throughput BLAST Output Viewer (BOV and Annotation Engine components, which provides comprehensive exportation of BLAST hits to text files, annotated fasta files, tables, or association files. Conclusion W.ND-BLAST provides an interactive tool that allows scientists to easily utilizing their available computing resources for high throughput and comprehensive sequence analyses. The install package for W.ND-BLAST is

  13. NASA Space Radiation Program Integrative Risk Model Toolkit

    Science.gov (United States)

    Kim, Myung-Hee Y.; Hu, Shaowen; Plante, Ianik; Ponomarev, Artem L.; Sandridge, Chris

    2015-01-01

    NASA Space Radiation Program Element scientists have been actively involved in development of an integrative risk models toolkit that includes models for acute radiation risk and organ dose projection (ARRBOD), NASA space radiation cancer risk projection (NSCR), hemocyte dose estimation (HemoDose), GCR event-based risk model code (GERMcode), and relativistic ion tracks (RITRACKS), NASA radiation track image (NASARTI), and the On-Line Tool for the Assessment of Radiation in Space (OLTARIS). This session will introduce the components of the risk toolkit with opportunity for hands on demonstrations. The brief descriptions of each tools are: ARRBOD for Organ dose projection and acute radiation risk calculation from exposure to solar particle event; NSCR for Projection of cancer risk from exposure to space radiation; HemoDose for retrospective dose estimation by using multi-type blood cell counts; GERMcode for basic physical and biophysical properties for an ion beam, and biophysical and radiobiological properties for a beam transport to the target in the NASA Space Radiation Laboratory beam line; RITRACKS for simulation of heavy ion and delta-ray track structure, radiation chemistry, DNA structure and DNA damage at the molecular scale; NASARTI for modeling of the effects of space radiation on human cells and tissue by incorporating a physical model of tracks, cell nucleus, and DNA damage foci with image segmentation for the automated count; and OLTARIS, an integrated tool set utilizing HZETRN (High Charge and Energy Transport) intended to help scientists and engineers study the effects of space radiation on shielding materials, electronics, and biological systems.

  14. Collision-resistant hash function based on composition of functions

    CERN Document Server

    Ndoundam, Rene

    2011-01-01

    cryptographic hash function is a deterministic procedure that compresses an arbitrary block of numerical data and returns a fixed-size bit string. There exist many hash functions: MD5, HAVAL, SHA, ... It was reported that these hash functions are not longer secure. Our work is focused in the construction of a new hash function based on composition of functions. The construction used the NP-completeness of Three-dimensional contingency tables and the relaxation of the constraint that a hash function should also be a compression function.

  15. Methods for Evaluating Text Extraction Toolkits: An Exploratory Investigation

    Science.gov (United States)

    2015-01-22

    M T R 1 4 0 4 4 3 R 2 M I T R E T E C H N I C A L R E P O R T Methods for Evaluating Text Extraction Toolkits : An...JAN 2015 2. REPORT TYPE 3. DATES COVERED 00-00-2015 to 00-00-2015 4. TITLE AND SUBTITLE Methods for Evaluating Text Extraction Toolkits : An...contributes to closing this gap. We discuss an exploratory investigation into a method and a set of tools for evaluating a text extraction toolkit

  16. Microfluidics-Based Single-Cell Functional Proteomics for Fundamental and Applied Biomedical Applications

    Science.gov (United States)

    Yu, Jing; Zhou, Jing; Sutherland, Alex; Wei, Wei; Shin, Young Shik; Xue, Min; Heath, James R.

    2014-06-01

    We review an emerging microfluidics-based toolkit for single-cell functional proteomics. Functional proteins include, but are not limited to, the secreted signaling proteins that can reflect the biological behaviors of immune cells or the intracellular phosphoproteins associated with growth factor-stimulated signaling networks. Advantages of the microfluidics platforms are multiple. First, 20 or more functional proteins may be assayed simultaneously from statistical numbers of single cells. Second, cell behaviors (e.g., motility) may be correlated with protein assays. Third, extensions to quantized cell populations can permit measurements of cell-cell interactions. Fourth, rare cells can be functionally identified and then separated for further analysis or culturing. Finally, certain assay types can provide a conduit between biology and the physicochemical laws. We discuss the history and challenges of the field then review design concepts and uses of the microchip platforms that have been reported, with an eye toward biomedical applications. We then look to the future of the field.

  17. Offloadable Apps using SmartDiet: Towards an analysis toolkit for mobile application developers

    CERN Document Server

    Saarinen, Aki; Xiao, Yu; Nurminen, Jukka K; Kemppainen, Matti; Hui, Pan

    2011-01-01

    Offloading work to cloud is one of the proposed solutions for increasing the battery life of mobile devices. Most prior research has focused on computation-intensive applications, even though such applications are not the most popular ones. In this paper, we first study the feasibility of method-level offloading in network-intensive applications, using an open source Twitter client as an example. Our key observation is that implementing offloading transparently to the developer is difficult: various constraints heavily limit the offloading possibilities, and estimation of the potential benefit is challenging. We then propose a toolkit, SmartDiet, to assist mobile application developers in creating code which is suitable for energy-efficient offloading. SmartDiet provides fine-grained offloading constraint identification and energy usage analysis for Android applications. In addition to outlining the overall functionality of the toolkit, we study some of its key mechanisms and identify the remaining challenges...

  18. Diabetes and Healthy Eyes Toolkit: a community health worker program to prevent vision loss and blindness among people with diabetes.

    Science.gov (United States)

    Ammary-Risch, Neyal J; Aguilar, Marcela; Goodman, Laura Saunders; Quiroz, Leslie

    2012-01-01

    Diabetic eye disease is a leading cause of vision loss and blindness in the United States and disproportionately affects Hispanics/Latinos. This article provides an overview of the Diabetes and Healthy Eyes Toolkit, a culturally and linguistically appropriate resource designed for community health workers to educate people with diabetes about eye health complications. The toolkit provides science-based, easy-to-understand information that can be used to conduct interactive, educational sessions about diabetes and eye health, the importance of comprehensive dilated eye examinations at least once a year for people with diabetes, and other ways to prevent vision loss and blindness.

  19. NBII-SAIN Data Management Toolkit

    Science.gov (United States)

    Burley, Thomas E.; Peine, John D.

    2009-01-01

    percent of the cost of a spatial information system is associated with spatial data collection and management (U.S. General Accounting Office, 2003). These figures indicate that the resources (time, personnel, money) of many agencies and organizations could be used more efficiently and effectively. Dedicated and conscientious data management coordination and documentation is critical for reducing such redundancy. Substantial cost savings and increased efficiency are direct results of a pro-active data management approach. In addition, details of projects as well as data and information are frequently lost as a result of real-world occurrences such as the passing of time, job turnover, and equipment changes and failure. A standardized, well documented database allows resource managers to identify issues, analyze options, and ultimately make better decisions in the context of adaptive management (National Land and Water Resources Audit and the Australia New Zealand Land Information Council on behalf of the Australian National Government, 2003). Many environmentally focused, scientific, or natural resource management organizations collect and create both spatial and non-spatial data in some form. Data management appropriate for those data will be contingent upon the project goal(s) and objectives and thus will vary on a case-by-case basis. This project and the resulting Data Management Toolkit, hereafter referred to as the Toolkit, is therefore not intended to be comprehensive in terms of addressing all of the data management needs of all projects that contain biological, geospatial, and other types of data. The Toolkit emphasizes the idea of connecting a project's data and the related management needs to the defined project goals and objectives from the outset. In that context, the Toolkit presents and describes the fundamental components of sound data and information management that are common to projects involving biological, geospatial, and other related data

  20. A Cosmology Forecast Toolkit -- CosmoLib

    CERN Document Server

    Huang, Zhiqi

    2012-01-01

    The package CosmoLib is a combination of a cosmological Boltzmann code and a simulation toolkit to forecast the constraints on cosmological parameters from future observations. In this paper we describe the released linear-order part of the package. We discuss the stability and performance of the Boltzmann code. This is written in Newtonian gauge and including dark energy perturbations. In CosmoLib the integrator that computes the CMB angular power spectrum is optimized for a $\\ell$-by-$\\ell$ brute-force integration, which is useful for studying inflationary models predicting sharp features in the primordial power spectrum of metric fluctuations. The numerical code and its documentation are available at http://www.cita.utoronto.ca/~zqhuang/CosmoLib.

  1. Grids Portals: Frameworks, Middleware or Toolkit

    Directory of Open Access Journals (Sweden)

    Xavier Medianero-Pasco

    2010-05-01

    Full Text Available Grid portals are interfaces for interconnection between Grid resources and users. Grid portals are supported by components called portlets, servlets and middleware. Frameworks, middleware and/or development toolkits are used in the design and development of grid portals; each of them presents distinctive characteristics like any existing tool for grid portals such as: GridSphere, GridPort, PortalLab and others. The concept and definition of the components of a Grid Portal are not clear at the time of their application, because different models and works are appointed arbitrarily without taking into account the approach and features of the concept. Their clarification can give an insight to each grid portal and existing components.

  2. MX: A beamline control system toolkit

    Science.gov (United States)

    Lavender, William M.

    2000-06-01

    The development of experimental and beamline control systems for two Collaborative Access Teams at the Advanced Photon Source has resulted in the creation of a portable data acquisition and control toolkit called MX. MX consists of a set of servers, application programs and libraries that enable the creation of command line and graphical user interface applications that may be easily retargeted to new and different kinds of motor and device controllers. The source code for MX is written in ANSI C and Tcl/Tk with interprocess communication via TCP/IP. MX is available for several versions of Unix, Windows 95/98/NT and DOS. It may be downloaded from the web site http://www.imca.aps.anl.gov/mx/.

  3. STAR: Software Toolkit for Analysis Research

    Energy Technology Data Exchange (ETDEWEB)

    Doak, J.E.; Prommel, J.M.; Whiteson, R.; Hoffbauer, B.L.; Thomas, T.R. [Los Alamos National Lab., NM (United States); Helman, P. [New Mexico Univ., Albuquerque, NM (United States). Dept. of Computer Science

    1993-08-01

    Analyzing vast quantities of data from diverse information sources is an increasingly important element for nonproliferation and arms control analysis. Much of the work in this area has used human analysts to assimilate, integrate, and interpret complex information gathered from various sources. With the advent of fast computers, we now have the capability to automate this process thereby shifting this burden away from humans. In addition, there now exist huge data storage capabilities which have made it possible to formulate large integrated databases comprising many thereabouts of information spanning a variety of subjects. We are currently designing a Software Toolkit for Analysis Research (STAR) to address these issues. The goal of STAR is to Produce a research tool that facilitates the development and interchange of algorithms for locating phenomena of interest to nonproliferation and arms control experts. One major component deals with the preparation of information. The ability to manage and effectively transform raw data into a meaningful form is a prerequisite for analysis by any methodology. The relevant information to be analyzed can be either unstructured text structured data, signals, or images. Text can be numerical and/or character, stored in raw data files, databases, streams of bytes, or compressed into bits in formats ranging from fixed, to character-delimited, to a count followed by content The data can be analyzed in real-time or batch mode. Once the data are preprocessed, different analysis techniques can be applied. Some are built using expert knowledge. Others are trained using data collected over a period of time. Currently, we are considering three classes of analyzers for use in our software toolkit: (1) traditional machine learning techniques, (2) the purely statistical system, and (3) expert systems.

  4. A Perl toolkit for LIMS development

    Directory of Open Access Journals (Sweden)

    Jacobs Ian J

    2008-03-01

    Full Text Available Abstract Background High throughput laboratory techniques generate huge quantities of scientific data. Laboratory Information Management Systems (LIMS are a necessary requirement, dealing with sample tracking, data storage and data reporting. Commercial LIMS solutions are available, but these can be both costly and overly complex for the task. The development of bespoke LIMS solutions offers a number of advantages, including the flexibility to fulfil all a laboratory's requirements at a fraction of the price of a commercial system. The programming language Perl is a perfect development solution for LIMS applications because of Perl's powerful but simple to use database and web interaction, it is also well known for enabling rapid application development and deployment, and boasts a very active and helpful developer community. The development of an in house LIMS from scratch however can take considerable time and resources, so programming tools that enable the rapid development of LIMS applications are essential but there are currently no LIMS development tools for Perl. Results We have developed ArrayPipeline, a Perl toolkit providing object oriented methods that facilitate the rapid development of bespoke LIMS applications. The toolkit includes Perl objects that encapsulate key components of a LIMS, providing methods for creating interactive web pages, interacting with databases, error tracking and reporting, and user and session management. The MT_Plate object provides methods for manipulation and management of microtitre plates, while a given LIMS can be encapsulated by extension of the core modules, providing system specific methods for database interaction and web page management. Conclusion This important addition to the Perl developer's library will make the development of in house LIMS applications quicker and easier encouraging laboratories to create bespoke LIMS applications to meet their specific data management requirements.

  5. Adoption of Test Driven Development and Continuous Integration for the Development of the Trick Simulation Toolkit

    Science.gov (United States)

    Penn, John M.

    2013-01-01

    This paper describes the adoption of a Test Driven Development approach and a Continuous Integration System in the development of the Trick Simulation Toolkit, a generic simulation development environment for creating high fidelity training and engineering simulations at the NASA/Johnson Space Center and many other NASA facilities. It describes what was learned and the significant benefits seen, such as fast, thorough, and clear test feedback every time code is checked-in to the code repository. It also describes a system that encourages development of code that is much more flexible, maintainable, and reliable. The Trick Simulation Toolkit development environment provides a common architecture for user-defined simulations. Trick builds executable simulations using user-supplied simulation-definition files (S_define) and user supplied "model code". For each Trick-based simulation, Trick automatically provides job scheduling, checkpoint / restore, data-recording, interactive variable manipulation (variable server), and an input-processor. Also included are tools for plotting recorded data and various other supporting tools and libraries. Trick is written in C/C++ and Java and supports both Linux and MacOSX. Prior to adopting this new development approach, Trick testing consisted primarily of running a few large simulations, with the hope that their complexity and scale would exercise most of Trick's code and expose any recently introduced bugs. Unsurprising, this approach yielded inconsistent results. It was obvious that a more systematic, thorough approach was required. After seeing examples of some Java-based projects that used the JUnit test framework, similar test frameworks for C and C++ were sought. Several were found, all clearly inspired by JUnit. Googletest, a freely available Open source testing framework, was selected as the most appropriate and capable. The new approach was implemented while rewriting the Trick memory management component, to eliminate a

  6. Food: Too Good to Waste Implementation Guide and Toolkit

    Science.gov (United States)

    The Food: Too Good to Waste (FTGTW) Implementation Guide and Toolkit is designed for community organizations, local governments, households and others interested in reducing wasteful household food management practices.

  7. A Multi-Physics CFD Toolkit for Reentry Flows Project

    Data.gov (United States)

    National Aeronautics and Space Administration — AeroSoft proposes to develop a full featured CFD toolkit for analysis of the aerothermal environment and its effect on space vehicles. In Phase I, AeroSoft proposes...

  8. Energy Savings Performance Contract Energy Sales Agreement Toolkit

    Energy Technology Data Exchange (ETDEWEB)

    None

    2017-08-14

    FEMP developed the Energy Savings Performance Contracting Energy Sales Agreement (ESPC ESA) Toolkit to provide federal agency contracting officers and other acquisition team members with information that will facilitate the timely execution of ESPC ESA projects.

  9. Toolkit for local decision makers aims to strengthen environmental sustainability

    CSIR Research Space (South Africa)

    Murambadoro, M

    2011-11-01

    Full Text Available Members of the South African Risk and Vulnerability Atlas were involved in a meeting aimed at the development of a toolkit towards improved integration of climate change into local government's integrated development planning (IDP) process....

  10. NeuroPigPen: A Scalable Toolkit for Processing Electrophysiological Signal Data in Neuroscience Applications Using Apache Pig.

    Science.gov (United States)

    Sahoo, Satya S; Wei, Annan; Valdez, Joshua; Wang, Li; Zonjy, Bilal; Tatsuoka, Curtis; Loparo, Kenneth A; Lhatoo, Samden D

    2016-01-01

    is highly scalable and adaptable, which makes it suitable for use in neuroscience applications as a scalable data processing toolkit. As part of the ongoing extension of NeuroPigPen, we are developing new modules to support statistical functions to analyze signal data for brain connectivity research. In addition, the toolkit is being extended to allow integration with scientific workflow systems. NeuroPigPen is released under BSD license at: https://sites.google.com/a/case.edu/neuropigpen/.

  11. Exploring the Social Engineering Toolkit (Set Using Backtrack 5R3

    Directory of Open Access Journals (Sweden)

    Talatam. Durga Rao

    2014-12-01

    Full Text Available Linux Operating System is being reverenced by many professionals because of its versatile nature. As many network security professionals ,particularly those of ethical hackers use linux in an extensive way, did we ever observe how and why the number of hackers were enhancing day to day. Not only professionals ,every one are unleashing their hacking potentials with the help of Backtrack5R3 operating system which is a comprehensive tool kit for security auditing. This paper emphasizes on the so called SET (Social Engineering Toolkit.In a pen-testing scenario, alongside uncovering vulnerabilities in the hardware and software systems and exploiting them ,the most effective of all is penetrating the human mind to extract the desire information. Such devious technics are known as social engineering ,and computer based software tools to facilitate this form the basis of Social Engineering Toolkit

  12. Ethnography in design: Tool-kit or analytic science?

    DEFF Research Database (Denmark)

    Bossen, Claus

    2002-01-01

    The role of ethograpyh in system development is discussed through the selective application of an ethnographic easy-to-use toolkit, Contextual design, by a computer firm in the initial stages of the development of a health care system.......The role of ethograpyh in system development is discussed through the selective application of an ethnographic easy-to-use toolkit, Contextual design, by a computer firm in the initial stages of the development of a health care system....

  13. FUNCTIONAL BEVERAGES BASED ON VEGETABLE JUICES

    Directory of Open Access Journals (Sweden)

    Limareva N. S.

    2014-01-01

    Full Text Available This article covers development of functional beverages technology based on using vegetable juice with apple and beetroot pectin concentrates, content of vitamins, minerals and functional properties

  14. Behavioral Genetic Toolkits: Toward the Evolutionary Origins of Complex Phenotypes.

    Science.gov (United States)

    Rittschof, C C; Robinson, G E

    2016-01-01

    The discovery of toolkit genes, which are highly conserved genes that consistently regulate the development of similar morphological phenotypes across diverse species, is one of the most well-known observations in the field of evolutionary developmental biology. Surprisingly, this phenomenon is also relevant for a wide array of behavioral phenotypes, despite the fact that these phenotypes are highly complex and regulated by many genes operating in diverse tissues. In this chapter, we review the use of the toolkit concept in the context of behavior, noting the challenges of comparing behaviors and genes across diverse species, but emphasizing the successes in identifying genetic toolkits for behavior; these successes are largely attributable to the creative research approaches fueled by advances in behavioral genomics. We have two general goals: (1) to acknowledge the groundbreaking progress in this field, which offers new approaches to the difficult but exciting challenge of understanding the evolutionary genetic basis of behaviors, some of the most complex phenotypes known, and (2) to provide a theoretical framework that encompasses the scope of behavioral genetic toolkit studies in order to clearly articulate the research questions relevant to the toolkit concept. We emphasize areas for growth and highlight the emerging approaches that are being used to drive the field forward. Behavioral genetic toolkit research has elevated the use of integrative and comparative approaches in the study of behavior, with potentially broad implications for evolutionary biologists and behavioral ecologists alike.

  15. Deriving Default Dermal Exposure Values for Use in a Risk Assessment Toolkit for Small and Medium-sized Enterprises

    NARCIS (Netherlands)

    Warren, N.; Goede, H.A.; Tijssen, S.C.H.A.; Oppl, R.; Schipper, H.J.; Hemmen, J.J. van

    2003-01-01

    This paper describes the derivation of default task-based dermal exposure values for use in a risk assessment toolkit for small and medium-sized enterprises (SMEs). A set of separately determined dermal exposure modifiers have been applied to published studies of dermal exposure to obtain 'normalize

  16. The SpeX Prism Library Analysis Toolkit: Design Considerations and First Results

    Science.gov (United States)

    Burgasser, Adam J.; Aganze, Christian; Escala, Ivana; Lopez, Mike; Choban, Caleb; Jin, Yuhui; Iyer, Aishwarya; Tallis, Melisa; Suarez, Adrian; Sahi, Maitrayee

    2016-01-01

    Various observational and theoretical spectral libraries now exist for galaxies, stars, planets and other objects, which have proven useful for classification, interpretation, simulation and model development. Effective use of these libraries relies on analysis tools, which are often left to users to develop. In this poster, we describe a program to develop a combined spectral data repository and Python-based analysis toolkit for low-resolution spectra of very low mass dwarfs (late M, L and T dwarfs), which enables visualization, spectral index analysis, classification, atmosphere model comparison, and binary modeling for nearly 2000 library spectra and user-submitted data. The SpeX Prism Library Analysis Toolkit (SPLAT) is being constructed as a collaborative, student-centered, learning-through-research model with high school, undergraduate and graduate students and regional science teachers, who populate the database and build the analysis tools through quarterly challenge exercises and summer research projects. In this poster, I describe the design considerations of the toolkit, its current status and development plan, and report the first published results led by undergraduate students. The combined data and analysis tools are ideal for characterizing cool stellar and exoplanetary atmospheres (including direct exoplanetary spectra observations by Gemini/GPI, VLT/SPHERE, and JWST), and the toolkit design can be readily adapted for other spectral datasets as well.This material is based upon work supported by the National Aeronautics and Space Administration under Grant No. NNX15AI75G. SPLAT code can be found at https://github.com/aburgasser/splat.

  17. Open Drug Discovery Toolkit (ODDT): a new open-source player in the drug discovery field.

    Science.gov (United States)

    Wójcikowski, Maciej; Zielenkiewicz, Piotr; Siedlecki, Pawel

    2015-01-01

    There has been huge progress in the open cheminformatics field in both methods and software development. Unfortunately, there has been little effort to unite those methods and software into one package. We here describe the Open Drug Discovery Toolkit (ODDT), which aims to fulfill the need for comprehensive and open source drug discovery software. The Open Drug Discovery Toolkit was developed as a free and open source tool for both computer aided drug discovery (CADD) developers and researchers. ODDT reimplements many state-of-the-art methods, such as machine learning scoring functions (RF-Score and NNScore) and wraps other external software to ease the process of developing CADD pipelines. ODDT is an out-of-the-box solution designed to be easily customizable and extensible. Therefore, users are strongly encouraged to extend it and develop new methods. We here present three use cases for ODDT in common tasks in computer-aided drug discovery. Open Drug Discovery Toolkit is released on a permissive 3-clause BSD license for both academic and industrial use. ODDT's source code, additional examples and documentation are available on GitHub (https://github.com/oddt/oddt).

  18. ApiNATOMY: a novel toolkit for visualizing multiscale anatomy schematics with phenotype-related information.

    Science.gov (United States)

    de Bono, Bernard; Grenon, Pierre; Sammut, Stephen John

    2012-05-01

    A significant proportion of biomedical resources carries information that cross references to anatomical structures across multiple scales. To improve the visualization of such resources in their anatomical context, we developed an automated methodology that produces anatomy schematics in a consistent manner,and provides for the overlay of anatomy-related resource information onto the same diagram. This methodology, called ApiNATOMY, draws upon the topology of ontology graphs to automatically lay out treemaps representing body parts as well as semantic metadata linking to such ontologies. More generally, ApiNATOMY treemaps provide an efficient and manageable way to visualize large biomedical ontologies in a meaningful and consistent manner. In the anatomy domain, such treemaps will allow epidemiologists, clinicians, and biomedical scientists to review, and interact with, anatomically aggregated heterogeneous data and model resources. Such an approach supports the visual identification of functional relations between anatomically colocalized resources that may not be immediately amenable to automation by ontology-based inferencing. We also describe the application of ApiNATOMY schematics to integrate, and add value to, human phenotype-related information—results are found at http://apinatomy.org. The long-term goal for the ApiNATOMY toolkit is to support clinical and scientific graphical user interfaces and dashboards for biomedical resource management and data analytics.

  19. A configuration space toolkit for automated spatial reasoning: Technical results and LDRD project final report

    Energy Technology Data Exchange (ETDEWEB)

    Xavier, P.G.; LaFarge, R.A.

    1997-02-01

    A robot`s configuration space (c-space) is the space of its kinematic degrees of freedom, e.g., the joint-space of an arm. Sets in c-space can be defined that characterize a variety of spatial relationships, such as contact between the robot and its environment. C-space techniques have been fundamental to research progress in areas such as motion planning and physically-based reasoning. However, practical progress has been slowed by the difficulty of implementing the c-space abstraction inside each application. For this reason, we proposed a Configuration Space Toolkit of high-performance algorithms and data structures meeting these needs. Our intent was to develop this robotics software to provide enabling technology to emerging applications that apply the c-space abstraction, such as advanced motion planning, teleoperation supervision, mechanism functional analysis, and design tools. This final report presents the research results and technical achievements of this LDRD project. Key results and achievements included (1) a hybrid Common LISP/C prototype that implements the basic C-Space abstraction, (2) a new, generic, algorithm for constructing hierarchical geometric representations, and (3) a C++ implementation of an algorithm for fast distance computation, interference detection, and c-space point-classification. Since the project conclusion, motion planning researchers in Sandia`s Intelligent Systems and Robotics Center have been using the CSTk libcstk.so C++ library. The code continues to be used, supported, and improved by projects in the ISRC.

  20. CDC's Health Equity Resource Toolkit: disseminating guidance for state practitioners to address obesity disparities.

    Science.gov (United States)

    Payne, Gayle Holmes; James, Stephen D; Hawley, Lisa; Corrigan, Bethany; Kramer, Rachel E; Overton, Samantha N; Farris, Rosanne P; Wasilewski, Yvonne

    2015-01-01

    Obesity has been on the rise in the United States over the past three decades, and is high. In addition to population-wide trends, it is clear that obesity affects some groups more than others and can be associated with age, income, education, gender, race and ethnicity, and geographic region. To reverse the obesity epidemic, the Centers for Disease Control and Prevention) promotes evidence-based and practice-informed strategies to address nutrition and physical activity environments and behaviors. These public health strategies require translation into actionable approaches that can be implemented by state and local entities to address disparities. The Centers for Disease Control and Prevention used findings from an expert panel meeting to guide the development and dissemination of the Health Equity Resource Toolkit for State Practitioners Addressing Obesity Disparities (available at http://www.cdc.gov/obesity/health_equity/toolkit.html). The Toolkit helps public health practitioners take a systematic approach to program planning using a health equity lens. The Toolkit provides a six-step process for planning, implementing, and evaluating strategies to address obesity disparities. Each section contains (a) a basic description of the steps of the process and suggested evidence-informed actions to help address obesity disparities, (b) practical tools for carrying out activities to help reduce obesity disparities, and (c) a "real-world" case study of a successful state-level effort to address obesity with a focus on health equity that is particularly relevant to the content in that section. Hyperlinks to additional resources are included throughout.

  1. The UK Earth System Models Marine Biogeochemical Evaluation Toolkit, BGC-val

    Science.gov (United States)

    de Mora, Lee

    2017-04-01

    The Biogeochemical Validation toolkit, BGC-val, is a model and grid independent python-based marine model evaluation framework that automates much of the validation of the marine component of an Earth System Model. BGC-val was initially developed to be a flexible and extensible system to evaluate the spin up of the marine UK Earth System Model (UKESM). However, the grid-independence and flexibility means that it is straightforward to adapt the BGC-val framework to evaluate other marine models. In addition to the marine component of the UKESM, this toolkit has been adapted to compare multiple models, including models from the CMIP5 and iMarNet inter-comparison projects. The BGC-val toolkit produces multiple levels of analysis which are presented in a simple to use interactive html5 document. Level 1 contains time series analyses, showing the development over time of many important biogeochemical and physical ocean metrics, such as the Global primary production or the Drake passage current. The second level of BGC-val is an in-depth spatial analyses of a single point in time. This is a series of point to point comparison of model and data in various regions, such as a comparison of Surface Nitrate in the model vs data from the world ocean atlas. The third level analyses are specialised ad-hoc packages to go in-depth on a specific question, such as the development of Oxygen minimum zones in the Equatorial Pacific. In additional to the three levels, the html5 document opens with a Level 0 table showing a summary of the status of the model run. The beta version of this toolkit is available via the Plymouth Marine Laboratory Gitlab server and uses the BSD 3 clause license.

  2. WAVOS: a MATLAB toolkit for wavelet analysis and visualization of oscillatory systems

    Directory of Open Access Journals (Sweden)

    Harang Richard

    2012-03-01

    Full Text Available Abstract Background Wavelets have proven to be a powerful technique for the analysis of periodic data, such as those that arise in the analysis of circadian oscillators. While many implementations of both continuous and discrete wavelet transforms are available, we are aware of no software that has been designed with the nontechnical end-user in mind. By developing a toolkit that makes these analyses accessible to end users without significant programming experience, we hope to promote the more widespread use of wavelet analysis. Findings We have developed the WAVOS toolkit for wavelet analysis and visualization of oscillatory systems. WAVOS features both the continuous (Morlet and discrete (Daubechies wavelet transforms, with a simple, user-friendly graphical user interface within MATLAB. The interface allows for data to be imported from a number of standard file formats, visualized, processed and analyzed, and exported without use of the command line. Our work has been motivated by the challenges of circadian data, thus default settings appropriate to the analysis of such data have been pre-selected in order to minimize the need for fine-tuning. The toolkit is flexible enough to deal with a wide range of oscillatory signals, however, and may be used in more general contexts. Conclusions We have presented WAVOS: a comprehensive wavelet-based MATLAB toolkit that allows for easy visualization, exploration, and analysis of oscillatory data. WAVOS includes both the Morlet continuous wavelet transform and the Daubechies discrete wavelet transform. We have illustrated the use of WAVOS, and demonstrated its utility for the analysis of circadian data on both bioluminesence and wheel-running data. WAVOS is freely available at http://sourceforge.net/projects/wavos/files/

  3. CDC’s Health Equity Resource Toolkit: Disseminating Guidance for State Practitioners to Address Obesity Disparities

    Science.gov (United States)

    Payne, Gayle Holmes; James, Stephen D.; Hawley, Lisa; Corrigan, Bethany; Kramer, Rachel E.; Overton, Samantha N.; Farris, Rosanne P.; Wasilewski, Yvonne

    2015-01-01

    Obesity has been on the rise in the United States over the past three decades, and is high. In addition to population-wide trends, it is clear that obesity affects some groups more than others and can be associated with age, income, education, gender, race and ethnicity, and geographic region. To reverse the obesity epidemic, the Centers for Disease Control and Prevention) promotes evidence-based and practice-informed strategies to address nutrition and physical activity environments and behaviors. These public health strategies require translation into actionable approaches that can be implemented by state and local entities to address disparities. The Centers for Disease Control and Prevention used findings from an expert panel meeting to guide the development and dissemination of the Health Equity Resource Toolkit for State Practitioners Addressing Obesity Disparities (available at http://www.cdc.gov/obesity/health_equity/toolkit.html). The Toolkit helps public health practitioners take a systematic approach to program planning using a health equity lens. The Toolkit provides a six-step process for planning, implementing, and evaluating strategies to address obesity disparities. Each section contains (a) a basic description of the steps of the process and suggested evidence-informed actions to help address obesity disparities, (b) practical tools for carrying out activities to help reduce obesity disparities, and (c) a “real-world” case study of a successful state-level effort to address obesity with a focus on health equity that is particularly relevant to the content in that section. Hyperlinks to additional resources are included throughout. PMID:24962967

  4. The Semi-Automatic Parallelisation of Scientific Application Codes Using a Computer Aided Parallelisation Toolkit

    Directory of Open Access Journals (Sweden)

    C.S. Ierotheou

    2001-01-01

    Full Text Available The shared-memory programming model can be an effective way to achieve parallelism on shared memory parallel computers. Historically however, the lack of a programming standard using directives and the limited scalability have affected its take-up. Recent advances in hardware and software technologies have resulted in improvements to both the performance of parallel programs with compiler directives and the issue of portability with the introduction of OpenMP. In this study, the Computer Aided Parallelisation Toolkit has been extended to automatically generate OpenMP-based parallel programs with nominal user assistance. We categorize the different loop types and show how efficient directives can be placed using the toolkit's in-depth interprocedural analysis. Examples are taken from the NAS parallel benchmarks and a number of real-world application codes. This demonstrates the great potential of using the toolkit to quickly parallelise serial programs as well as the good performance achievable on up to 300 processors for hybrid message passing-directive parallelisations.

  5. E-ELT modeling and simulation toolkits: philosophy and progress status

    Science.gov (United States)

    Sedghi, B.; Muller, M.; Bonnet, H.; Esselborn, M.; Le Louarn, M.; Clare, R.; Koch, F.

    2011-09-01

    To predict the performance of the E-ELT three sets of toolkits are developed at ESO: i) The main structure and associated optical unit dynamical and feedback control toolkit, ii) Active optics and phasing toolkit, and iii) adaptive optics simulation toolkit. There was a deliberate policy not to integrate all of the systems into a massive model and tool. The dynamical and control time scale differences are used to separate the simulation environments and tools. Therefore, each toolkit contains an appropriate detail of the problem and holds sufficient overlap with the others to ensure the consistency of the results. In this paper, these toolkits together with some examples are presented.

  6. Security Assessment Simulation Toolkit (SAST) Final Report

    Energy Technology Data Exchange (ETDEWEB)

    Meitzler, Wayne D.; Ouderkirk, Steven J.; Hughes, Chad O.

    2009-11-15

    The Department of Defense Technical Support Working Group (DoD TSWG) investment in the Pacific Northwest National Laboratory (PNNL) Security Assessment Simulation Toolkit (SAST) research planted a technology seed that germinated into a suite of follow-on Research and Development (R&D) projects culminating in software that is used by multiple DoD organizations. The DoD TSWG technology transfer goal for SAST is already in progress. The Defense Information Systems Agency (DISA), the Defense-wide Information Assurance Program (DIAP), the Marine Corps, Office Of Naval Research (ONR) National Center For Advanced Secure Systems Research (NCASSR) and Office Of Secretary Of Defense International Exercise Program (OSD NII) are currently investing to take SAST to the next level. PNNL currently distributes the software to over 6 government organizations and 30 DoD users. For the past five DoD wide Bulwark Defender exercises, the adoption of this new technology created an expanding role for SAST. In 2009, SAST was also used in the OSD NII International Exercise and is currently scheduled for use in 2010.

  7. The microRNA toolkit of insects

    Science.gov (United States)

    Ylla, Guillem; Fromm, Bastian; Piulachs, Maria-Dolors; Belles, Xavier

    2016-01-01

    Is there a correlation between miRNA diversity and levels of organismic complexity? Exhibiting extraordinary levels of morphological and developmental complexity, insects are the most diverse animal class on earth. Their evolutionary success was in particular shaped by the innovation of holometabolan metamorphosis in endopterygotes. Previously, miRNA evolution had been linked to morphological complexity, but astonishing variation in the currently available miRNA complements of insects made this link unclear. To address this issue, we sequenced the miRNA complement of the hemimetabolan Blattella germanica and reannotated that of two other hemimetabolan species, Locusta migratoria and Acyrthosiphon pisum, and of four holometabolan species, Apis mellifera, Tribolium castaneum, Bombyx mori and Drosophila melanogaster. Our analyses show that the variation of insect miRNAs is an artefact mainly resulting from poor sampling and inaccurate miRNA annotation, and that insects share a conserved microRNA toolkit of 65 families exhibiting very low variation. For example, the evolutionary shift toward a complete metamorphosis was accompanied only by the acquisition of three and the loss of one miRNA families. PMID:27883064

  8. Asteroids Outreach Toolkit Development: Using Iterative Feedback In Informal Education

    Science.gov (United States)

    White, Vivian; Berendsen, M.; Gurton, S.; Dusenbery, P. B.

    2011-01-01

    The Night Sky Network is a collaboration of close to 350 astronomy clubs across the US that actively engage in public outreach within their communities. Since 2004, the Astronomical Society of the Pacific has been creating outreach ToolKits filled with carefully crafted sets of physical materials designed to help these volunteer clubs explain the wonders of the night sky to the public. The effectiveness of the ToolKit activities and demonstrations is the direct result of a thorough testing and vetting process. Find out how this iterative assessment process can help other programs create useful tools for both formal and informal educators. The current Space Rocks Outreach ToolKit focuses on explaining asteroids, comets, and meteorites to the general public using quick, big-picture activities that get audiences involved. Eight previous ToolKits cover a wide range of topics from the Moon to black holes. In each case, amateur astronomers and the public helped direct the development the activities along the way through surveys, focus groups, and active field-testing. The resulting activities have been embraced by the larger informal learning community and are enthusiastically being delivered to millions of people across the US and around the world. Each ToolKit is delivered free of charge to active Night Sky Network astronomy clubs. All activity write-ups are available free to download at the website listed here. Amateur astronomers receive frequent questions from the public about Earth impacts, meteors, and comets so this set of activities will help them explain the dynamics of these phenomena to the public. The Space Rocks ToolKit resources complement the Great Balls of Fire museum exhibit produced by Space Science Institute's National Center for Interactive Learning and scheduled for release in 2011. NSF has funded this national traveling exhibition and outreach ToolKit under Grant DRL-0813528.

  9. A Gateway MultiSite recombination cloning toolkit.

    Directory of Open Access Journals (Sweden)

    Lena K Petersen

    Full Text Available The generation of DNA constructs is often a rate-limiting step in conducting biological experiments. Recombination cloning of single DNA fragments using the Gateway system provided an advance over traditional restriction enzyme cloning due to increases in efficiency and reliability. Here we introduce a series of entry clones and a destination vector for use in two, three, and four fragment Gateway MultiSite recombination cloning whose advantages include increased flexibility and versatility. In contrast to Gateway single-fragment cloning approaches where variations are typically incorporated into model system-specific destination vectors, our Gateway MultiSite cloning strategy incorporates variations in easily generated entry clones that are model system-independent. In particular, we present entry clones containing insertions of GAL4, QF, UAS, QUAS, eGFP, and mCherry, among others, and demonstrate their in vivo functionality in Drosophila by using them to generate expression clones including GAL4 and QF drivers for various trp ion channel family members, UAS and QUAS excitatory and inhibitory light-gated ion channels, and QUAS red and green fluorescent synaptic vesicle markers. We thus establish a starter toolkit of modular Gateway MultiSite entry clones potentially adaptable to any model system. An inventory of entry clones and destination vectors for Gateway MultiSite cloning has also been established (www.gatewaymultisite.org.

  10. Teaching and learning "on the run": ready-to-use toolkits in busy clinical settings.

    Science.gov (United States)

    Cleary, Michelle; Walter, Garry

    2010-06-01

    Clinicians should strongly consider using toolkits in their workplaces with students on clinical placement. These toolkits could include brief quizzes, crossword puzzles, vignettes, role-playing, storytelling, or reflective activities to engage students in context-specific, collaborative learning.

  11. Microgrid Design Toolkit (MDT) Technical Documentation and Component Summaries

    Energy Technology Data Exchange (ETDEWEB)

    Arguello, Bryan [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Gearhart, Jared Lee [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Jones, Katherine A. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Eddy, John P. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

    2015-09-01

    The Microgrid Design Toolkit (MDT) is a decision support software tool for microgrid designers to use during the microgrid design process. The models that support the two main capabilities in MDT are described. The first capability, the Microgrid Sizing Capability (MSC), is used to determine the size and composition of a new microgrid in the early stages of the design process. MSC is a mixed-integer linear program that is focused on developing a microgrid that is economically viable when connected to the grid. The second capability is focused on refining a microgrid design for operation in islanded mode. This second capability relies on two models: the Technology Management Optimization (TMO) model and Performance Reliability Model (PRM). TMO uses a genetic algorithm to create and refine a collection of candidate microgrid designs. It uses PRM, a simulation based reliability model, to assess the performance of these designs. TMO produces a collection of microgrid designs that perform well with respect to one or more performance metrics.

  12. Dosimetry applications in GATE Monte Carlo toolkit.

    Science.gov (United States)

    Papadimitroulas, Panagiotis

    2017-02-21

    Monte Carlo (MC) simulations are a well-established method for studying physical processes in medical physics. The purpose of this review is to present GATE dosimetry applications on diagnostic and therapeutic simulated protocols. There is a significant need for accurate quantification of the absorbed dose in several specific applications such as preclinical and pediatric studies. GATE is an open-source MC toolkit for simulating imaging, radiotherapy (RT) and dosimetry applications in a user-friendly environment, which is well validated and widely accepted by the scientific community. In RT applications, during treatment planning, it is essential to accurately assess the deposited energy and the absorbed dose per tissue/organ of interest, as well as the local statistical uncertainty. Several types of realistic dosimetric applications are described including: molecular imaging, radio-immunotherapy, radiotherapy and brachytherapy. GATE has been efficiently used in several applications, such as Dose Point Kernels, S-values, Brachytherapy parameters, and has been compared against various MC codes which are considered as standard tools for decades. Furthermore, the presented studies show reliable modeling of particle beams when comparing experimental with simulated data. Examples of different dosimetric protocols are reported for individualized dosimetry and simulations combining imaging and therapy dose monitoring, with the use of modern computational phantoms. Personalization of medical protocols can be achieved by combining GATE MC simulations with anthropomorphic computational models and clinical anatomical data. This is a review study, covering several dosimetric applications of GATE, and the different tools used for modeling realistic clinical acquisitions with accurate dose assessment. Copyright © 2017 Associazione Italiana di Fisica Medica. Published by Elsevier Ltd. All rights reserved.

  13. Research standardization tools: pregnancy measures in the PhenX Toolkit.

    Science.gov (United States)

    Malinowski, Ann Kinga; Ananth, Cande V; Catalano, Patrick; Hines, Erin P; Kirby, Russell S; Klebanoff, Mark A; Mulvihill, John J; Simhan, Hyagriv; Hamilton, Carol M; Hendershot, Tabitha P; Phillips, Michael J; Kilpatrick, Lisa A; Maiese, Deborah R; Ramos, Erin M; Wright, Rosalind J; Dolan, Siobhan M

    2017-09-01

    Only through concerted and well-executed research endeavors can we gain the requisite knowledge to advance pregnancy care and have a positive impact on maternal and newborn health. Yet the heterogeneity inherent in individual studies limits our ability to compare and synthesize study results, thus impeding the capacity to draw meaningful conclusions that can be trusted to inform clinical care. The PhenX Toolkit (http://www.phenxtoolkit.org), supported since 2007 by the National Institutes of Health, is a web-based catalog of standardized protocols for measuring phenotypes and exposures relevant for clinical research. In 2016, a working group of pregnancy experts recommended 15 measures for the PhenX Toolkit that are highly relevant to pregnancy research. The working group followed the established PhenX consensus process to recommend protocols that are broadly validated, well established, nonproprietary, and have a relatively low burden for investigators and participants. The working group considered input from the pregnancy experts and the broader research community and included measures addressing the mode of conception, gestational age, fetal growth assessment, prenatal care, the mode of delivery, gestational diabetes, behavioral and mental health, and environmental exposure biomarkers. These pregnancy measures complement the existing measures for other established domains in the PhenX Toolkit, including reproductive health, anthropometrics, demographic characteristics, and alcohol, tobacco, and other substances. The preceding domains influence a woman's health during pregnancy. For each measure, the PhenX Toolkit includes data dictionaries and data collection worksheets that facilitate incorporation of the protocol into new or existing studies. The measures within the pregnancy domain offer a valuable resource to investigators and clinicians and are well poised to facilitate collaborative pregnancy research with the goal to improve patient care. To achieve this

  14. Assessing the support provided by a toolkit for rapid prototyping of multimodal systems

    OpenAIRE

    CUENCA LUCERO, Fredy; Vanacken, Davy; Coninx, Karin; Luyten, Kris

    2013-01-01

    Choosing an appropriate toolkit for creating a multimodal interface is a cumbersome task. Several specialized toolkits include fusion and fission engines that allow developers to combine and decompose modalities to capture multimodal input and provide multimodal output. Unfortunately, the extent to which these toolkits can facilitate the creation of a multimodal interface is hard or impossible to estimate, due to the absence of a scale where the toolkit's capabilities can be measured on. In t...

  15. An epigenetic toolkit allows for diverse genome architectures in eukaryotes.

    Science.gov (United States)

    Maurer-Alcalá, Xyrus X; Katz, Laura A

    2015-12-01

    Genome architecture varies considerably among eukaryotes in terms of both size and structure (e.g. distribution of sequences within the genome, elimination of DNA during formation of somatic nuclei). The diversity in eukaryotic genome architectures and the dynamic processes are only possible due to the well-developed epigenetic toolkit, which probably existed in the Last Eukaryotic Common Ancestor (LECA). This toolkit may have arisen as a means of navigating the genomic conflict that arose from the expansion of transposable elements within the ancestral eukaryotic genome. This toolkit has been coopted to support the dynamic nature of genomes in lineages across the eukaryotic tree of life. Here we highlight how the changes in genome architecture in diverse eukaryotes are regulated by epigenetic processes, such as DNA elimination, genome rearrangements, and adaptive changes to genome architecture. The ability to epigenetically modify and regulate genomes has contributed greatly to the diversity of eukaryotes observed today.

  16. Windows forensic analysis toolkit advanced analysis techniques for Windows 7

    CERN Document Server

    Carvey, Harlan

    2012-01-01

    Now in its third edition, Harlan Carvey has updated "Windows Forensic Analysis Toolkit" to cover Windows 7 systems. The primary focus of this edition is on analyzing Windows 7 systems and on processes using free and open-source tools. The book covers live response, file analysis, malware detection, timeline, and much more. The author presents real-life experiences from the trenches, making the material realistic and showing the why behind the how. New to this edition, the companion and toolkit materials are now hosted online. This material consists of electronic printable checklists, cheat sheets, free custom tools, and walk-through demos. This edition complements "Windows Forensic Analysis Toolkit, 2nd Edition", (ISBN: 9781597494229), which focuses primarily on XP. It includes complete coverage and examples on Windows 7 systems. It contains Lessons from the Field, Case Studies, and War Stories. It features companion online material, including electronic printable checklists, cheat sheets, free custom tools, ...

  17. The PRIDE (Partnership to Improve Diabetes Education) Toolkit

    Science.gov (United States)

    Wolff, Kathleen; Chambers, Laura; Bumol, Stefan; White, Richard O.; Gregory, Becky Pratt; Davis, Dianne; Rothman, Russell L.

    2016-01-01

    Purpose Patients with low literacy, low numeracy, and/or linguistic needs can experience challenges understanding diabetes information and applying concepts to their self-management. The authors designed a toolkit of education materials that are sensitive to patients' literacy and numeracy levels, language preferences, and cultural norms and that encourage shared goal setting to improve diabetes self-management and health outcomes. The Partnership to Improve Diabetes Education (PRIDE) toolkit was developed to facilitate diabetes self-management education and support. Methods The PRIDE toolkit includes a comprehensive set of 30 interactive education modules in English and Spanish to support diabetes self-management activities. The toolkit builds upon the authors' previously validated Diabetes Literacy and Numeracy Education Toolkit (DLNET) by adding a focus on shared goal setting, addressing the needs of Spanish-speaking patients, and including a broader range of diabetes management topics. Each PRIDE module was evaluated using the Suitability Assessment of Materials (SAM) instrument to determine the material's cultural appropriateness and its sensitivity to the needs of patients with low literacy and low numeracy. Reading grade level was also assessed using the Automated Readability Index (ARI), Coleman-Liau, Flesch-Kincaid, Fry, and SMOG formulas. Conclusions The average reading grade level of the materials was 5.3 (SD 1.0), with a mean SAM of 91.2 (SD 5.4). All of the 30 modules received a “superior” score (SAM >70%) when evaluated by 2 independent raters. The PRIDE toolkit modules can be used by all members of a multidisciplinary team to assist patients with low literacy and low numeracy in managing their diabetes. PMID:26647414

  18. Machine function based control code algebras

    NARCIS (Netherlands)

    Bergstra, J.A.

    2008-01-01

    Machine functions have been introduced by Earley and Sturgis in [6] in order to provide a mathematical foundation of the use of the T-diagrams proposed by Bratman in [5]. Machine functions describe the operation of a machine at a very abstract level. A theory of hardware and software based on machin

  19. Deconstructing the toolkit: creativity and risk in the NHS workforce.

    Science.gov (United States)

    Allen, Von; Brodzinski, Emma

    2009-12-01

    Deconstructing the Toolkit explores the current desire for toolkits that promise failsafe structures to facilitate creative success. The paper examines this cultural phenomenon within the context of the risk-averse workplace-with particular focus on the NHS. The writers draw on Derrida and deconstructionism to reflect upon the principles of creativity and the possibilities for being creative within the workplace. Through reference to The Extra Mile project facilitated by Open Art, the paper examines the importance of engaging with an aesthetic of creativity and embracing a more holistic approach to the problems and potential of the creative process.

  20. System Design Toolkit for Integrated Modular Avionics for Space

    Science.gov (United States)

    Hann, Mark; Balbastre Betoret, Patricia; Simo Ten, Jose Enrique; De Ferluc, Regis; Ramachandran, Jinesh

    2015-09-01

    The IMA-SP development process identified tools were needed to perform the activities of: i) Partitioning and Resource Allocation and ii) System Feasibility Assessment. This paper describes the definition, design, implementation and test of the tool support required to perform the IMA-SP development process activities. This includes the definition of a data model, with associated files and file formats, describing the complete setup of a partitioned system and allowing system feasibility assessment; the development of a prototype of the tool set, that is called the IMA-SP System Design Toolkit (SDT) and the demonstration of the toolkit on a case study.

  1. Development of the eHealth Literacy Assessment Toolkit, eHLA

    DEFF Research Database (Denmark)

    Lauritzen, Dorthe Furstrand; Kayser, Lars

    2015-01-01

    In a world with rising focus on the use of eHealth, the match between the competences of the individual and the demands of eHealth systems becomes increasingly important, thus making assessment of eHealth literacy as a measure of user competences a vital element. We propose the eHealth Literacy...... Assessment toolkit, eHLA, evaluating the user by seven scales: computer familiarity, confidence, incentive and performance as well as functional health literacy, health literacy self-assessment and health literacy performance, as a first step toward development of technology that accommodates the literacy...

  2. A Toolkit of Systems Gaming Techniques

    Science.gov (United States)

    Finnigan, David; McCaughey, Jamie W.

    2017-04-01

    Decision-makers facing natural hazard crises need a broad set of cognitive tools to help them grapply with complexity. Systems gaming can act as a kind of 'flight simulator for decision making' enabling us to step through real life complex scenarios of the kind that beset us in natural disaster situations. Australian science-theatre ensemble Boho Interactive is collaborating with the Earth Observatory Singapore to develop an in-person systems game modelling an unfolding natural hazard crisis (volcanic unrest or an approaching typhoon) impacting an Asian city. Through a combination of interactive mechanisms drawn from boardgaming and participatory theatre, players will make decisions and assign resources in response to the unfolding crisis. In this performance, David Finnigan from Boho will illustrate some of the participatory techniques that Boho use to illustrate key concepts from complex systems science. These activities are part of a toolkit which can be adapted to fit a range of different contexts and scenarios. In this session, David will present short activities that demonstrate a range of systems principles including common-pool resource challenges (the Tragedy of the Commons), interconnectivity, unintended consequences, tipping points and phase transitions, and resilience. The interactive mechanisms for these games are all deliberately lo-fi rather than digital, for three reasons. First, the experience of a tactile, hands-on game is more immediate and engaging. It brings the focus of the participants into the room and facilitates engagement with the concepts and with each other, rather than with individual devices. Second, the mechanics of the game are laid bare. This is a valuable way to illustrate that complex systems are all around us, and are not merely the domain of hi-tech systems. Finally, these games can be used in a wide variety of contexts by removing computer hardware requirements and instead using materials and resources that are easily found in

  3. 3D Reconstruction and Virtual Cutting Research on Coarse Aggregate Morphology and the MicroFabric with Computed Tomography and the Visualization Toolkit

    Directory of Open Access Journals (Sweden)

    Zhiyuan Zeng

    2012-08-01

    Full Text Available Three-dimensional visualization is a new research field in information processing and VTK is a visualization toolkit with strong functions. Due to the fact that most two-dimensional microfabric models of coarse-aggregate materials are not accurate, three-dimensional model is needed. This study laid its focus on the theoretical model of three-dimensional visualization and the visualization technology based on VTK to study the coarse-aggregate morphology and the microfabric. The experimental reconstruction results show that the particle morphology and inter-particle pore space are clear and can describe the morphological features of coarse-aggregate particle accurately with the assistance of suitable virtual cutting method.

  4. A Python Interface for the Dakota Iterative Systems Analysis Toolkit

    Science.gov (United States)

    Piper, M.; Hutton, E.; Syvitski, J. P.

    2016-12-01

    Uncertainty quantification is required to improve the accuracy, reliability, and accountability of Earth science models. Dakota is a software toolkit, developed at Sandia National Laboratories, that provides an interface between models and a library of analysis methods, including support for sensitivity analysis, uncertainty quantification, optimization, and calibration techniques. Dakota is a powerful tool, but its learning curve is steep: the user not only must understand the structure and syntax of the Dakota input file, but also must develop intermediate code, called an analysis driver, that allows Dakota to run a model. The CSDMS Dakota interface (CDI) is a Python package that wraps and extends Dakota's user interface. It simplifies the process of configuring and running a Dakota experiment. A user can program to the CDI, allowing a Dakota experiment to be scripted. The CDI creates Dakota input files and provides a generic analysis driver. Any model written in Python that exposes a Basic Model Interface (BMI), as well as any model componentized in the CSDMS modeling framework, automatically works with the CDI. The CDI has a plugin architecture, so models written in other languages, or those that don't expose a BMI, can be accessed by the CDI by programmatically extending a template; an example is provided in the CDI distribution. Currently, six Dakota analysis methods have been implemented for examples from the much larger Dakota library. To demonstrate the CDI, we performed an uncertainty quantification experiment with the HydroTrend hydrological water balance and transport model. In the experiment, we evaluated the response of long-term suspended sediment load at the river mouth (Qs) to uncertainty in two input parameters, annual mean temperature (T) and precipitation (P), over a series of 100-year runs, using the polynomial chaos method. Through Dakota, we calculated moments, local and global (Sobol') sensitivity indices, and probability density and

  5. Integrating SVC and HOL with the PROSPER Toolkit

    OpenAIRE

    Stevenson, Alan; Dennis, Louise Abigail

    2000-01-01

    We describe an integration of the SVC decision procedure with the HOL theorem prover. This integration was achieved using the PROSPER toolkit. The SVC decision procedure operates on rational numbers, an axiomatic theory for which was provided in HOL. The decision procedure also returns counterexamples and a framework has been devised for handling counterexamples in a HOL setting.

  6. Toolkit for Conceptual Modeling (TCM): User's Guide and Reference

    NARCIS (Netherlands)

    Dehne, F.; Wieringa, R.J.

    1997-01-01

    The Toolkit for Conceptual Modeling (TCM) is a suite of graphical editors for a number of graphical notation systems that are used in software specification methods. The notations can be used to represent the conceptual structure of the software - hence the name of the suite. This manual describes

  7. Designing a Portable and Low Cost Home Energy Management Toolkit

    NARCIS (Netherlands)

    Keyson, D.V.; Al Mahmud, A.; De Hoogh, M.; Luxen, R.

    2013-01-01

    In this paper we describe the design of a home energy and comfort management system. The system has three components such as a smart plug with a wireless module, a residential gateway and a mobile app. The combined system is called a home energy management and comfort toolkit. The design is inspired

  8. Toolkit for Conceptual Modeling (TCM): User's Guide and Reference

    NARCIS (Netherlands)

    Dehne, F.; Wieringa, Roelf J.

    The Toolkit for Conceptual Modeling (TCM) is a suite of graphical editors for a number of graphical notation systems that are used in software specification methods. The notations can be used to represent the conceptual structure of the software - hence the name of the suite. This manual describes

  9. A toolkit for analyzing nonlinear dynamic stochastic models easily

    NARCIS (Netherlands)

    Uhlig, H.F.H.V.S.

    1995-01-01

    Often, researchers wish to analyze nonlinear dynamic discrete-time stochastic models. This paper provides a toolkit for solving such models easily, building on log-linearizing the necessary equations characterizing the equilibrium and solving for the recursive equilibrium law of motion with the meth

  10. A toolkit for analyzing nonlinear dynamic stochastic models easily

    NARCIS (Netherlands)

    Uhlig, H.F.H.V.S.

    1995-01-01

    Often, researchers wish to analyze nonlinear dynamic discrete-time stochastic models. This paper provides a toolkit for solving such models easily, building on log-linearizing the necessary equations characterizing the equilibrium and solving for the recursive equilibrium law of motion with the meth

  11. Using an Assistive Technology Toolkit to Promote Inclusion

    Science.gov (United States)

    Judge, Sharon; Floyd, Kim; Jeffs, Tara

    2008-01-01

    Although the use of assistive technology for young children is increasing, the lack of awareness and the lack of training continue to act as major barriers to providers using assistive technology. This article describes an assistive technology toolkit designed for use with young children with disabilities that can be easily assembled and…

  12. A Beginning Rural Principal's Toolkit: A Guide for Success

    Science.gov (United States)

    Ashton, Brian; Duncan, Heather E.

    2012-01-01

    The purpose of this article is to explore both the challenges and skills needed to effectively assume a leadership position and thus to create an entry plan or "toolkit" for a new rural school leader. The entry plan acts as a guide beginning principals may use to navigate the unavoidable confusion that comes with leadership. It also assists…

  13. Using Toolkits to Achieve STEM Enterprise Learning Outcomes

    Science.gov (United States)

    Watts, Carys A.; Wray, Katie

    2012-01-01

    Purpose: The purpose of this paper is to evaluate the effectiveness of using several commercial tools in science, technology, engineering and maths (STEM) subjects for enterprise education at Newcastle University, UK. Design/methodology/approach: The paper provides an overview of existing toolkit use in higher education, before reviewing where and…

  14. Using AASL's "Health and Wellness" and "Crisis Toolkits"

    Science.gov (United States)

    Logan, Debra Kay

    2009-01-01

    Whether a school library program is the picture of good health in a state that mandates a professionally staffed library media center in every building or is suffering in a low-wealth district that is facing drastic cuts, the recently launched toolkits by the American Association of School Librarians (AASL) are stocked with useful strategies and…

  15. Easy-to-use Software Toolkit for IR Cameras

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    CEDIP Infrared Systems, specialists in thermal IR camera systems, have announced a new toolkit for use with their range of cameras that enables simple set-up and control of a wide range of parameters using National Instruments LabVIEW? programming environment,

  16. A Toolkit to Implement Graduate Attributes in Geography Curricula

    Science.gov (United States)

    Spronken-Smith, Rachel; McLean, Angela; Smith, Nell; Bond, Carol; Jenkins, Martin; Marshall, Stephen; Frielick, Stanley

    2016-01-01

    This article uses findings from a project on engagement with graduate outcomes across higher education institutions in New Zealand to produce a toolkit for implementing graduate attributes in geography curricula. Key facets include strong leadership; academic developers to facilitate conversations about graduate attributes and teaching towards…

  17. VisDock: A Toolkit for Cross-Cutting Interactions in Visualization.

    Science.gov (United States)

    Choi, Jungu; Park, Deok Gun; Wong, Yuet Ling; Fisher, Eli; Elmqvist, Niklas

    2015-09-01

    Standard user applications provide a range of cross-cutting interaction techniques that are common to virtually all such tools: selection, filtering, navigation, layer management, and cut-and-paste. We present VisDock, a JavaScript mixin library that provides a core set of these cross-cutting interaction techniques for visualization, including selection (lasso, paths, shape selection, etc), layer management (visibility, transparency, set operations, etc), navigation (pan, zoom, overview, magnifying lenses, etc), and annotation (point-based, region-based, data-space based, etc). To showcase the utility of the library, we have released it as Open Source and integrated it with a large number of existing web-based visualizations. Furthermore, we have evaluated VisDock using qualitative studies with both developers utilizing the toolkit to build new web-based visualizations, as well as with end-users utilizing it to explore movie ratings data. Results from these studies highlight the usability and effectiveness of the toolkit from both developer and end-user perspectives.

  18. Evolving the US Climate Resilience Toolkit to Support a Climate-Smart Nation

    Science.gov (United States)

    Tilmes, C.; Niepold, F., III; Fox, J. F.; Herring, D.; Dahlman, L. E.; Hall, N.; Gardiner, N.

    2015-12-01

    Communities, businesses, resource managers, and decision-makers at all levels of government need information to understand and ameliorate climate-related risks. Likewise, climate information can expose latent opportunities. Moving from climate science to social and economic decisions raises complex questions about how to communicate the causes and impacts of climate variability and change; how to characterize and quantify vulnerabilities, risks, and opportunities faced by communities and businesses; and how to make and implement "win-win" adaptation plans at local, regional, and national scales. A broad coalition of federal agencies launched the U.S. Climate Resilience Toolkit (toolkit.climate.gov) in November 2014 to help our nation build resilience to climate-related extreme events. The site's primary audience is planners and decision makers in business, resource management, and government (at all levels) who seek science-based climate information and tools to help them in their near- and long-term planning. The Executive Office of the President assembled a task force of dozens of subject experts from across the 13 agencies of the U.S. Global Change Research Program to guide the site's development. The site's ongoing evolution is driven by feedback from the target audience. For example, based on feedback, climate projections will soon play a more prominent role in the site's "Climate Explorer" tool and case studies. The site's five-step adaptation planning process is being improved to better facilitate people getting started and to provide clear benchmarks for evaluating progress along the way. In this session, we will share lessons learned from a series of user engagements around the nation and evidence that the Toolkit couples climate information with actionable decision-making processes in ways that are helping Americans build resilience to climate-related stressors.

  19. Conservation and modification of genetic and physiological toolkits underpinning diapause in bumble bee queens.

    Science.gov (United States)

    Amsalem, Etya; Galbraith, David A; Cnaani, Jonathan; Teal, Peter E A; Grozinger, Christina M

    2015-11-01

    Diapause is the key adaptation allowing insects to survive unfavourable conditions and inhabit an array of environments. Physiological changes during diapause are largely conserved across species and are hypothesized to be regulated by a conserved suite of genes (a 'toolkit'). Furthermore, it is hypothesized that in social insects, this toolkit was co-opted to mediate caste differentiation between long-lived, reproductive, diapause-capable queens and short-lived, sterile workers. Using Bombus terrestris queens, we examined the physiological and transcriptomic changes associated with diapause and CO2 treatment, which causes queens to bypass diapause. We performed comparative analyses with genes previously identified to be associated with diapause in the Dipteran Sarcophaga crassipalpis and with caste differentiation in bumble bees. As in Diptera, diapause in bumble bees is associated with physiological and transcriptional changes related to nutrient storage, stress resistance and core metabolic pathways. There is a significant overlap, both at the level of transcript and gene ontology, between the genetic mechanisms mediating diapause in B. terrestris and S. crassipalpis, reaffirming the existence of a conserved insect diapause genetic toolkit. However, a substantial proportion (10%) of the differentially regulated transcripts in diapausing queens have no clear orthologs in other species, and key players regulating diapause in Diptera (juvenile hormone and vitellogenin) appear to have distinct functions in bumble bees. We also found a substantial overlap between genes related to caste determination and diapause in bumble bees. Thus, our studies demonstrate an intriguing interplay between pathways underpinning adaptation to environmental extremes and the evolution of sociality in insects.

  20. Hierarchical Identity-Based Lossy Trapdoor Functions

    CERN Document Server

    Escala, Alex; Libert, Benoit; Rafols, Carla

    2012-01-01

    Lossy trapdoor functions, introduced by Peikert and Waters (STOC'08), have received a lot of attention in the last years, because of their wide range of applications in theoretical cryptography. The notion has been recently extended to the identity-based scenario by Bellare et al. (Eurocrypt'12). We provide one more step in this direction, by considering the notion of hierarchical identity-based lossy trapdoor functions (HIB-LTDFs). Hierarchical identity-based cryptography generalizes identitybased cryptography in the sense that identities are organized in a hierarchical way; a parent identity has more power than its descendants, because it can generate valid secret keys for them. Hierarchical identity-based cryptography has been proved very useful both for practical applications and to establish theoretical relations with other cryptographic primitives. In order to realize HIB-LTDFs, we first build a weakly secure hierarchical predicate encryption scheme. This scheme, which may be of independent interest, is...

  1. Cal-Adapt: California's Climate Data Resource and Interactive Toolkit

    Science.gov (United States)

    Thomas, N.; Mukhtyar, S.; Wilhelm, S.; Galey, B.; Lehmer, E.

    2016-12-01

    Cal-Adapt is a web-based application that provides an interactive toolkit and information clearinghouse to help agencies, communities, local planners, resource managers, and the public understand climate change risks and impacts at the local level. The website offers interactive, visually compelling, and useful data visualization tools that show how climate change might affect California using downscaled continental climate data. Cal-Adapt is supporting California's Fourth Climate Change Assessment through providing access to the wealth of modeled and observed data and adaption-related information produced by California's scientific community. The site has been developed by UC Berkeley's Geospatial Innovation Facility (GIF) in collaboration with the California Energy Commission's (CEC) Research Program. The Cal-Adapt website allows decision makers, scientists and residents of California to turn research results and climate projections into effective adaptation decisions and policies. Since its release to the public in June 2011, Cal-Adapt has been visited by more than 94,000 unique visitors from over 180 countries, all 50 U.S. states, and 689 California localities. We will present several key visualizations that have been employed by Cal-Adapt's users to support their efforts to understand local impacts of climate change, indicate the breadth of data available, and delineate specific use cases. Recently, CEC and GIF have been developing and releasing Cal-Adapt 2.0, which includes updates and enhancements that are increasing its ease of use, information value, visualization tools, and data accessibility. We showcase how Cal-Adapt is evolving in response to feedback from a variety of sources to present finer-resolution downscaled data, and offer an open API that allows other organization to access Cal-Adapt climate data and build domain specific visualization and planning tools. Through a combination of locally relevant information, visualization tools, and access to

  2. Absolute Orientation Based on Distance Kernel Functions

    Directory of Open Access Journals (Sweden)

    Yanbiao Sun

    2016-03-01

    Full Text Available The classical absolute orientation method is capable of transforming tie points (TPs from a local coordinate system to a global (geodetic coordinate system. The method is based only on a unique set of similarity transformation parameters estimated by minimizing the total difference between all ground control points (GCPs and the fitted points. Nevertheless, it often yields a transformation with poor accuracy, especially in large-scale study cases. To address this problem, this study proposes a novel absolute orientation method based on distance kernel functions, in which various sets of similarity transformation parameters instead of only one set are calculated. When estimating the similarity transformation parameters for TPs using the iterative solution of a non-linear least squares problem, we assigned larger weighting matrices for the GCPs for which the distances from the point are short. The weighting matrices can be evaluated using the distance kernel function as a function of the distances between the GCPs and the TPs. Furthermore, we used the exponential function and the Gaussian function to describe distance kernel functions in this study. To validate and verify the proposed method, six synthetic and two real datasets were tested. The accuracy was significantly improved by the proposed method when compared to the classical method, although a higher computational complexity is experienced.

  3. A Grassroots Remote Sensing Toolkit Using Live Coding, Smartphones, Kites and Lightweight Drones.

    Directory of Open Access Journals (Sweden)

    K Anderson

    Full Text Available This manuscript describes the development of an android-based smartphone application for capturing aerial photographs and spatial metadata automatically, for use in grassroots mapping applications. The aim of the project was to exploit the plethora of on-board sensors within modern smartphones (accelerometer, GPS, compass, camera to generate ready-to-use spatial data from lightweight aerial platforms such as drones or kites. A visual coding 'scheme blocks' framework was used to build the application ('app', so that users could customise their own data capture tools in the field. The paper reports on the coding framework, then shows the results of test flights from kites and lightweight drones and finally shows how open-source geospatial toolkits were used to generate geographical information system (GIS-ready GeoTIFF images from the metadata stored by the app. Two Android smartphones were used in testing-a high specification OnePlus One handset and a lower cost Acer Liquid Z3 handset, to test the operational limits of the app on phones with different sensor sets. We demonstrate that best results were obtained when the phone was attached to a stable single line kite or to a gliding drone. Results show that engine or motor vibrations from powered aircraft required dampening to ensure capture of high quality images. We demonstrate how the products generated from the open-source processing workflow are easily used in GIS. The app can be downloaded freely from the Google store by searching for 'UAV toolkit' (UAV toolkit 2016, and used wherever an Android smartphone and aerial platform are available to deliver rapid spatial data (e.g. in supporting decision-making in humanitarian disaster-relief zones, in teaching or for grassroots remote sensing and democratic mapping.

  4. A Grassroots Remote Sensing Toolkit Using Live Coding, Smartphones, Kites and Lightweight Drones.

    Science.gov (United States)

    Anderson, K; Griffiths, D; DeBell, L; Hancock, S; Duffy, J P; Shutler, J D; Reinhardt, W J; Griffiths, A

    2016-01-01

    This manuscript describes the development of an android-based smartphone application for capturing aerial photographs and spatial metadata automatically, for use in grassroots mapping applications. The aim of the project was to exploit the plethora of on-board sensors within modern smartphones (accelerometer, GPS, compass, camera) to generate ready-to-use spatial data from lightweight aerial platforms such as drones or kites. A visual coding 'scheme blocks' framework was used to build the application ('app'), so that users could customise their own data capture tools in the field. The paper reports on the coding framework, then shows the results of test flights from kites and lightweight drones and finally shows how open-source geospatial toolkits were used to generate geographical information system (GIS)-ready GeoTIFF images from the metadata stored by the app. Two Android smartphones were used in testing-a high specification OnePlus One handset and a lower cost Acer Liquid Z3 handset, to test the operational limits of the app on phones with different sensor sets. We demonstrate that best results were obtained when the phone was attached to a stable single line kite or to a gliding drone. Results show that engine or motor vibrations from powered aircraft required dampening to ensure capture of high quality images. We demonstrate how the products generated from the open-source processing workflow are easily used in GIS. The app can be downloaded freely from the Google store by searching for 'UAV toolkit' (UAV toolkit 2016), and used wherever an Android smartphone and aerial platform are available to deliver rapid spatial data (e.g. in supporting decision-making in humanitarian disaster-relief zones, in teaching or for grassroots remote sensing and democratic mapping).

  5. Information encryption systems based on Boolean functions

    Directory of Open Access Journals (Sweden)

    Aureliu Zgureanu

    2011-02-01

    Full Text Available An information encryption system based on Boolean functions is proposed. Information processing is done using multidimensional matrices, performing logical operations with these matrices. At the basis of ensuring high level security of the system the complexity of solving the problem of building systems of Boolean functions that depend on many variables (tens and hundreds is set. Such systems represent the private key. It varies both during the encryption and decryption of information, and during the transition from one message to another.

  6. A toolkit to promote fidelity to health promotion interventions in afterschool programs.

    Science.gov (United States)

    Wiecha, Jean L; Hannon, Cynthia; Meyer, Kimberly

    2013-05-01

    Community-based obesity prevention efforts are an essential component of a public health approach to obesity and chronic disease risk reduction. Afterschool programs can participate by providing healthy snacks and regular physical activity. Although efficacious obesity prevention strategies have been identified, they have not been widely implemented. The authors describe the development of A+, a quality improvement (QI) toolkit designed to help YMCA afterschool programs implement healthy eating and physical activity guidelines. YMCA of the USA Health Promotion Standards for afterschool sites specify eliminating sugar-sweetened beverages and trans fats; providing fruits, vegetables, and water; and ensuring at least 30 minutes of physical activity daily. Field tests of A+ indicated that a QI toolkit for community-based afterschool programs can be implemented by a program director across multiple program sites, responds to programmatic needs, appropriately identifies barriers to improvement, and permits development of locally appropriate improvement plans. The QI approach holds promise for public health efforts and for field research to evaluate promising interventions by helping ensure full implementation of health promotion strategies.

  7. Versatile RNA tetra-U helix linking motif as a toolkit for nucleic acid nanotechnology.

    Science.gov (United States)

    Bui, My N; Brittany Johnson, M; Viard, Mathias; Satterwhite, Emily; Martins, Angelica N; Li, Zhihai; Marriott, Ian; Afonin, Kirill A; Khisamutdinov, Emil F

    2017-04-01

    RNA nanotechnology employs synthetically modified ribonucleic acid (RNA) to engineer highly stable nanostructures in one, two, and three dimensions for medical applications. Despite the tremendous advantages in RNA nanotechnology, unmodified RNA itself is fragile and prone to enzymatic degradation. In contrast to use traditionally modified RNA strands e.g. 2'-fluorine, 2'-amine, 2'-methyl, we studied the effect of RNA/DNA hybrid approach utilizing a computer-assisted RNA tetra-uracil (tetra-U) motif as a toolkit to address questions related to assembly efficiency, versatility, stability, and the production costs of hybrid RNA/DNA nanoparticles. The tetra-U RNA motif was implemented to construct four functional triangles using RNA, DNA and RNA/DNA mixtures, resulting in fine-tunable enzymatic and thermodynamic stabilities, immunostimulatory activity and RNAi capability. Moreover, the tetra-U toolkit has great potential in the fabrication of rectangular, pentagonal, and hexagonal NPs, representing the power of simplicity of RNA/DNA approach for RNA nanotechnology and nanomedicine community. Copyright © 2017 Elsevier Inc. All rights reserved.

  8. Backtracking behaviour in lost ants: an additional strategy in their navigational toolkit

    Science.gov (United States)

    Wystrach, Antoine; Schwarz, Sebastian; Baniel, Alice; Cheng, Ken

    2013-01-01

    Ants use multiple sources of information to navigate, but do not integrate all this information into a unified representation of the world. Rather, the available information appears to serve three distinct main navigational systems: path integration, systematic search and the use of learnt information—mainly via vision. Here, we report on an additional behaviour that suggests a supplemental system in the ant's navigational toolkit: ‘backtracking’. Homing ants, having almost reached their nest but, suddenly displaced to unfamiliar areas, did not show the characteristic undirected headings of systematic searches. Instead, these ants backtracked in the compass direction opposite to the path that they had just travelled. The ecological function of this behaviour is clear as we show it increases the chances of returning to familiar terrain. Importantly, the mechanistic implications of this behaviour stress an extra level of cognitive complexity in ant navigation. Our results imply: (i) the presence of a type of ‘memory of the current trip’ allowing lost ants to take into account the familiar view recently experienced, and (ii) direct sharing of information across different navigational systems. We propose a revised architecture of the ant's navigational toolkit illustrating how the different systems may interact to produce adaptive behaviours. PMID:23966644

  9. Adding Impacts and Mitigation Measures to OpenEI's RAPID Toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Vogel, Erin

    2017-05-01

    The Open Energy Information platform hosts the Regulatory and Permitting Information Desktop (RAPID) Toolkit to provide renewable energy permitting information on federal and state regulatory processes. One of the RAPID Toolkit's functions is to help streamline the geothermal permitting processes outlined in the National Environmental Policy Act (NEPA). This is particularly important in the geothermal energy sector since each development phase requires separate land analysis to acquire exploration, well field drilling, and power plant construction permits. Using the Environmental Assessment documents included in RAPID's NEPA Database, the RAPID team identified 37 resource categories that a geothermal project may impact. Examples include impacts to geology and minerals, nearby endangered species, or water quality standards. To provide federal regulators, project developers, consultants, and the public with typical impacts and mitigation measures for geothermal projects, the RAPID team has provided overview webpages of each of these 37 resource categories with a sidebar query to reference related NEPA documents in the NEPA Database. This project is an expansion of a previous project that analyzed the time to complete NEPA environmental review for various geothermal activities. The NEPA review not only focused on geothermal projects within the Bureau of Land Management and U.S. Forest Service managed lands, but also projects funded by the Department of Energy. Timeline barriers found were: extensive public comments and involvement; content overlap in NEPA documents, and discovery of impacted resources such as endangered species or cultural sites.

  10. A Toolkit For Storage Qos Provisioning For Data-Intensive Applications

    Directory of Open Access Journals (Sweden)

    Renata Słota

    2012-01-01

    Full Text Available This paper describes a programming toolkit developed in the PL-Grid project, named QStorMan, which supports storage QoS provisioning for data-intensive applications in distributed environments. QStorMan exploits knowledge-oriented methods for matching storage resources to non-functional requirements, which are defined for a data-intensive application. In order to support various usage scenarios, QStorMan provides two interfaces, such as programming libraries or a web portal. The interfaces allow to define the requirements either directly in an application source code or by using an intuitive graphical interface. The first way provides finer granularity, e.g., each portion of data processed by an application can define a different set of requirements. The second method is aimed at legacy applications support, which source code can not be modified. The toolkit has been evaluated using synthetic benchmarks and the production infrastructure of PL-Grid, in particular its storage infrastructure, which utilizes the Lustre file system.

  11. Functional Knowledge Representation Based on Problem Reduction

    Institute of Scientific and Technical Information of China (English)

    高济

    1992-01-01

    This paper proposes an approach for functional knowledge representation based on problem reuction,which represents the organization of problem-solving activities in two levels:reduction and reasoning.The former makes the functional plans for problem-solving while the latter constructs functional units, called handlers,for executing subproblems designated by these plans.This approach emphasizes that the representation of domain knowledge should be closely combined with(rather than separated from)its use,therefore provides a set of reasoning-level primitives to construct handlers and formulate the control strategies for executing them,As reduction-level primitives,handlers are used to construct handler-associative networks,which become the executable representation of problem-reduction graphs,in order to realize the problem-solving methods suited to domain features.Besides,handlers and their control slots can be used to focus the attention of knowledge acquisition and reasoning control.

  12. General Structures of Block Based Interpolational Function

    Institute of Scientific and Technical Information of China (English)

    ZOU LE; TANG SHUO; Ma Fu-ming

    2012-01-01

    We construct general structures of one and two variable interpolation function,without depending on the existence of divided difference or inverse differences,and we also discuss the block based osculatory interpolation in one variable case.Clearly,our method offers many flexible interpolation schemes for choices.Error terms for the interpolation are determined and numerical examples are given to show the effectiveness of the results.

  13. Developing Mixed Reality Educational Applications: The Virtual Touch Toolkit

    Science.gov (United States)

    Mateu, Juan; Lasala, María José; Alamán, Xavier

    2015-01-01

    In this paper, we present Virtual Touch, a toolkit that allows the development of educational activities through a mixed reality environment such that, using various tangible elements, the interconnection of a virtual world with the real world is enabled. The main goal of Virtual Touch is to facilitate the installation, configuration and programming of different types of technologies, abstracting the creator of educational applications from the technical details involving the use of tangible interfaces and virtual worlds. Therefore, it is specially designed to enable teachers to themselves create educational activities for their students in a simple way, taking into account that teachers generally lack advanced knowledge in computer programming and electronics. The toolkit has been used to develop various educational applications that have been tested in two secondary education high schools in Spain. PMID:26334275

  14. A toolkit for epithermal neutron beam characterisation in BNCT.

    Science.gov (United States)

    Auterinen, Iiro; Serén, Tom; Uusi-Simola, Jouni; Kosunen, Antti; Savolainen, Sauli

    2004-01-01

    Methods for dosimetry of epithermal neutron beams used in boron neutron capture therapy (BNCT) have been developed and utilised within the Finnish BNCT project as well as within a European project for a code of practise for the dosimetry of BNCT. One outcome has been a travelling toolkit for BNCT dosimetry. It consists of activation detectors and ionisation chambers. The free-beam neutron spectrum is measured with a set of activation foils of different isotopes irradiated both in a Cd-capsule and without it. Neutron flux (thermal and epithermal) distribution in phantoms is measured using activation of Mn and Au foils, and Cu wire. Ionisation chamber (IC) measurements are performed both in-free-beam and in-phantom for determination of the neutron and gamma dose components. This toolkit has also been used at other BNCT facilities in Europe, the USA, Argentina and Japan.

  15. Developing Mixed Reality Educational Applications: The Virtual Touch Toolkit.

    Science.gov (United States)

    Mateu, Juan; Lasala, María José; Alamán, Xavier

    2015-08-31

    In this paper, we present Virtual Touch, a toolkit that allows the development of educational activities through a mixed reality environment such that, using various tangible elements, the interconnection of a virtual world with the real world is enabled. The main goal of Virtual Touch is to facilitate the installation, configuration and programming of different types of technologies, abstracting the creator of educational applications from the technical details involving the use of tangible interfaces and virtual worlds. Therefore, it is specially designed to enable teachers to themselves create educational activities for their students in a simple way, taking into account that teachers generally lack advanced knowledge in computer programming and electronics. The toolkit has been used to develop various educational applications that have been tested in two secondary education high schools in Spain.

  16. ProtoMD: A prototyping toolkit for multiscale molecular dynamics

    Science.gov (United States)

    Somogyi, Endre; Mansour, Andrew Abi; Ortoleva, Peter J.

    2016-05-01

    ProtoMD is a toolkit that facilitates the development of algorithms for multiscale molecular dynamics (MD) simulations. It is designed for multiscale methods which capture the dynamic transfer of information across multiple spatial scales, such as the atomic to the mesoscopic scale, via coevolving microscopic and coarse-grained (CG) variables. ProtoMD can be also be used to calibrate parameters needed in traditional CG-MD methods. The toolkit integrates 'GROMACS wrapper' to initiate MD simulations, and 'MDAnalysis' to analyze and manipulate trajectory files. It facilitates experimentation with a spectrum of coarse-grained variables, prototyping rare events (such as chemical reactions), or simulating nanocharacterization experiments such as terahertz spectroscopy, AFM, nanopore, and time-of-flight mass spectroscopy. ProtoMD is written in python and is freely available under the GNU General Public License from github.com/CTCNano/proto_md.

  17. Geological hazards: from early warning systems to public health toolkits.

    Science.gov (United States)

    Samarasundera, Edgar; Hansell, Anna; Leibovici, Didier; Horwell, Claire J; Anand, Suchith; Oppenheimer, Clive

    2014-11-01

    Extreme geological events, such as earthquakes, are a significant global concern and sometimes their consequences can be devastating. Geographic information plays a critical role in health protection regarding hazards, and there are a range of initiatives using geographic information to communicate risk as well as to support early warning systems operated by geologists. Nevertheless we consider there to remain shortfalls in translating information on extreme geological events into health protection tools, and suggest that social scientists have an important role to play in aiding the development of a new generation of toolkits aimed at public health practitioners. This viewpoint piece reviews the state of the art in this domain and proposes potential contributions different stakeholder groups, including social scientists, could bring to the development of new toolkits.

  18. Developing Mixed Reality Educational Applications: The Virtual Touch Toolkit

    Directory of Open Access Journals (Sweden)

    Juan Mateu

    2015-08-01

    Full Text Available In this paper, we present Virtual Touch, a toolkit that allows the development of educational activities through a mixed reality environment such that, using various tangible elements, the interconnection of a virtual world with the real world is enabled. The main goal of Virtual Touch is to facilitate the installation, configuration and programming of different types of technologies, abstracting the creator of educational applications from the technical details involving the use of tangible interfaces and virtual worlds. Therefore, it is specially designed to enable teachers to themselves create educational activities for their students in a simple way, taking into account that teachers generally lack advanced knowledge in computer programming and electronics. The toolkit has been used to develop various educational applications that have been tested in two secondary education high schools in Spain.

  19. Control of acrobot based on Lyapunov function

    Institute of Scientific and Technical Information of China (English)

    赖旭芝; 吴敏; 佘锦华

    2004-01-01

    Fuzzy control based on Lyapunov function was employed to control the posture and the energy of an acrobot to make the transition from upswing control to balance control smoothly and stably. First, a control law based on Lyapunov function was used to control the angle and the angular velocity of the second link towards zero when the energy of the acrobot reaches the potential energy at the unstable straight-up equilibrium position in the upswing process. The controller based on Lyapunov function makes the second link straighten nature relatively to the first link. At the same time, a fuzzy controller was designed to regulate the parameters of the upper control law to keep the change of the energy of the acrobot to a minimum, so that the switching from upswing to balance can be properly carried out and the acrobot can enter the balance quickly. The results of simulation show that the switching from upswing to balance can be completed smoothly, and the control effect of the acrobot is improved greatly.

  20. A Multi-Code Analysis Toolkit for Astrophysical Simulation Data

    OpenAIRE

    Turk, Matthew J.; Smith., Britton D.; Oishi, Jeffrey S.; Skory, Stephen; Skillman, Samuel W.; Abel, Tom; Norman, Michael L.

    2010-01-01

    The analysis of complex multiphysics astrophysical simulations presents a unique and rapidly growing set of challenges: reproducibility, parallelization, and vast increases in data size and complexity chief among them. In order to meet these challenges, and in order to open up new avenues for collaboration between users of multiple simulation platforms, we present yt (available at http://yt.enzotools.org/), an open source, community-developed astrophysical analysis and visualization toolkit. ...

  1. Developing Mixed Reality Educational Applications: The Virtual Touch Toolkit

    OpenAIRE

    Juan Mateu; María José Lasala; Xavier Alamán

    2015-01-01

    © 2015 by MDPI (http://www.mdpi.org). Reproduction is permitted for noncommercial purposes. In this paper, we present Virtual Touch, a toolkit that allows the development of educational activities through a mixed reality environment such that, using various tangible elements, the interconnection of a virtual world with the real world is enabled. The main goal of Virtual Touch is to facilitate the installation, configuration and programming of different types of technologies, ab...

  2. Building user interfaces with Google Web Toolkit: usage properties analysis

    OpenAIRE

    Poklukar, Matej

    2012-01-01

    This Bachelor thesis provides an overview of different techniques used for web pages or web applications user interface development using Google Web Toolkit. During development process programmer and designer encounter the problem in which way should design be passed from designer to programmer. Designer can plot web page design easily on paper or in an appropriate program and sends it to the programmer. Or he can create design in more advanced form, as a multitude of different files. Prog...

  3. Business plans--tips from the toolkit 6.

    Science.gov (United States)

    Steer, Neville

    2010-07-01

    General practice is a business. Most practices can stay afloat by having appointments, billing patients, managing the administration processes and working long hours. What distinguishes the high performance organisation from the average organisation is a business plan. This article examines how to create a simple business plan that can be applied to the general practice setting and is drawn from material contained in The Royal Australian College of General Practitioners' 'General practice management toolkit'.

  4. NVIDIA发布CUDA Toolkit3.2

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    11月17日,NVIDIA正式发档CUDA Toolkit3.2正式版(Production releasel,浚版本软件可实现大幅的性能提升,包含全新的数学库以及先进的集群管理特性,适合这些开发北援一代GPU加速应用程序的开发者使用。

  5. IBM发布Autonomic Computing Toolkit 2.0

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    近日,IBM发布了新的自动计算工具包2.0(Autonomic Computing Toolkit 2.0)。该工具包能够帮助开发者以更快的速度把大量自我管理功能嵌入到已有的应用和服务中去。

  6. Expanding the bioluminescent toolkit for in vivo imaging

    OpenAIRE

    Paley, Miranda Amelia

    2014-01-01

    Bioluminescence imaging (BLI) is among the most dynamic imaging modalities for visualizing whole cells and gene expression patterns in vivo. This technique captures light emission from the luciferase-catalyzed oxidation of small molecule luciferins with highly sensitive CCD cameras. While powerful, current options for multiplexed BLI in mice are limited by the number of luciferase/luciferin pairs found in nature. Our lab aims to expand the bioluminescent toolkit by pairing mutant luciferases ...

  7. Risk of resource failure and toolkit variation in small-scale farmers and herders.

    Directory of Open Access Journals (Sweden)

    Mark Collard

    Full Text Available Recent work suggests that global variation in toolkit structure among hunter-gatherers is driven by risk of resource failure such that as risk of resource failure increases, toolkits become more diverse and complex. Here we report a study in which we investigated whether the toolkits of small-scale farmers and herders are influenced by risk of resource failure in the same way. In the study, we applied simple linear and multiple regression analysis to data from 45 small-scale food-producing groups to test the risk hypothesis. Our results were not consistent with the hypothesis; none of the risk variables we examined had a significant impact on toolkit diversity or on toolkit complexity. It appears, therefore, that the drivers of toolkit structure differ between hunter-gatherers and small-scale food-producers.

  8. Atlas-based functional radiosurgery: Early results

    Energy Technology Data Exchange (ETDEWEB)

    Stancanello, J.; Romanelli, P.; Pantelis, E.; Sebastiano, F.; Modugno, N. [Politecnico di Milano, Bioengineering Department and NEARlab, Milano, 20133 (Italy) and Siemens AG, Research and Clinical Collaborations, Erlangen, 91052 (Germany); Functional Neurosurgery Deptartment, Neuromed IRCCS, Pozzilli, 86077 (Italy); CyberKnife Center, Iatropolis, Athens, 15231 (Greece); Functional Neurosurgery Deptartment, Neuromed IRCCS, Pozzilli, 86077 (Italy)

    2009-02-15

    Functional disorders of the brain, such as dystonia and neuropathic pain, may respond poorly to medical therapy. Deep brain stimulation (DBS) of the globus pallidus pars interna (GPi) and the centromedian nucleus of the thalamus (CMN) may alleviate dystonia and neuropathic pain, respectively. A noninvasive alternative to DBS is radiosurgical ablation [internal pallidotomy (IP) and medial thalamotomy (MT)]. The main technical limitation of radiosurgery is that targets are selected only on the basis of MRI anatomy, without electrophysiological confirmation. This means that, to be feasible, image-based targeting must be highly accurate and reproducible. Here, we report on the feasibility of an atlas-based approach to targeting for functional radiosurgery. In this method, masks of the GPi, CMN, and medio-dorsal nucleus were nonrigidly registered to patients' T1-weighted MRI (T1w-MRI) and superimposed on patients' T2-weighted MRI (T2w-MRI). Radiosurgical targets were identified on the T2w-MRI registered to the planning CT by an expert functional neurosurgeon. To assess its feasibility, two patients were treated with the CyberKnife using this method of targeting; a patient with dystonia received an IP (120 Gy prescribed to the 65% isodose) and a patient with neuropathic pain received a MT (120 Gy to the 77% isodose). Six months after treatment, T2w-MRIs and contrast-enhanced T1w-MRIs showed edematous regions around the lesions; target placements were reevaluated by DW-MRIs. At 12 months post-treatment steroids for radiation-induced edema and medications for dystonia and neuropathic pain were suppressed. Both patients experienced significant relief from pain and dystonia-related problems. Fifteen months after treatment edema had disappeared. Thus, this work shows promising feasibility of atlas-based functional radiosurgery to improve patient condition. Further investigations are indicated for optimizing treatment dose.

  9. The ALMA Data Mining Toolkit I: Archive Setup and User Usage

    Science.gov (United States)

    Teuben, P.; Pound, M.; Mundy, L.; Looney, L.; Friedel, D. N.

    2014-05-01

    We report on an ALMA development study and project where we employ a novel approach to add data and data descriptors to ALMA archive data and allowing further flexible data mining on retrieved data. We call our toolkit ADMIT (the ALMA Data Mining Toolkit) that works within the Python based CASA environment. What is described here is a design study, with some exiting toy code to prove the concept. After ingestion of science ready datacubes, ADMIT will compute a number of basic and advanced data products, and their descriptors. Examples of such data products are cube statistics, line identification tables, line cubes, moment maps, an integrated spectrum, overlap integrals and feature extraction tables. Together with a descriptive XML file, a small number of visual aids are added to a ZIP file that is deposited into the archive. Large datasets (such as line cubes) will have to be rederived by the user once they have also downloaded the actual ALMA Data Products, or via VO services if available. ADMIT enables the user to rederive all its products with different methods and parameters, and compare archive product with their own.

  10. OpenMSI Arrayed Analysis Toolkit: Analyzing Spatially Defined Samples Using Mass Spectrometry Imaging.

    Science.gov (United States)

    de Raad, Markus; de Rond, Tristan; Rübel, Oliver; Keasling, Jay D; Northen, Trent R; Bowen, Benjamin P

    2017-06-06

    Mass spectrometry imaging (MSI) has primarily been applied in localizing biomolecules within biological matrices. Although well-suited, the application of MSI for comparing thousands of spatially defined spotted samples has been limited. One reason for this is a lack of suitable and accessible data processing tools for the analysis of large arrayed MSI sample sets. The OpenMSI Arrayed Analysis Toolkit (OMAAT) is a software package that addresses the challenges of analyzing spatially defined samples in MSI data sets. OMAAT is written in Python and is integrated with OpenMSI ( http://openmsi.nersc.gov ), a platform for storing, sharing, and analyzing MSI data. By using a web-based python notebook (Jupyter), OMAAT is accessible to anyone without programming experience yet allows experienced users to leverage all features. OMAAT was evaluated by analyzing an MSI data set of a high-throughput glycoside hydrolase activity screen comprising 384 samples arrayed onto a NIMS surface at a 450 μm spacing, decreasing analysis time >100-fold while maintaining robust spot-finding. The utility of OMAAT was demonstrated for screening metabolic activities of different sized soil particles, including hydrolysis of sugars, revealing a pattern of size dependent activities. These results introduce OMAAT as an effective toolkit for analyzing spatially defined samples in MSI. OMAAT runs on all major operating systems, and the source code can be obtained from the following GitHub repository: https://github.com/biorack/omaat .

  11. OpenMSI Arrayed Analysis Toolkit: Analyzing Spatially Defined Samples Using Mass Spectrometry Imaging

    Energy Technology Data Exchange (ETDEWEB)

    de Raad, Markus [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); de Rond, Tristan [Univ. of California, Berkeley, CA (United States); Rübel, Oliver [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Keasling, Jay D. [Univ. of California, Berkeley, CA (United States); Joint BioEnergy Inst. (JBEI), Emeryville, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Technical Univ. of Denmark, Lyngby (Denmark); Northen, Trent R. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Bowen, Benjamin P. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)

    2017-05-03

    Mass spectrometry imaging (MSI) has primarily been applied in localizing biomolecules within biological matrices. Although well-suited, the application of MSI for comparing thousands of spatially defined spotted samples has been limited. One reason for this is a lack of suitable and accessible data processing tools for the analysis of large arrayed MSI sample sets. In this paper, the OpenMSI Arrayed Analysis Toolkit (OMAAT) is a software package that addresses the challenges of analyzing spatially defined samples in MSI data sets. OMAAT is written in Python and is integrated with OpenMSI (http://openmsi.nersc.gov), a platform for storing, sharing, and analyzing MSI data. By using a web-based python notebook (Jupyter), OMAAT is accessible to anyone without programming experience yet allows experienced users to leverage all features. OMAAT was evaluated by analyzing an MSI data set of a high-throughput glycoside hydrolase activity screen comprising 384 samples arrayed onto a NIMS surface at a 450 μm spacing, decreasing analysis time >100-fold while maintaining robust spot-finding. The utility of OMAAT was demonstrated for screening metabolic activities of different sized soil particles, including hydrolysis of sugars, revealing a pattern of size dependent activities. Finally, these results introduce OMAAT as an effective toolkit for analyzing spatially defined samples in MSI. OMAAT runs on all major operating systems, and the source code can be obtained from the following GitHub repository: https://github.com/biorack/omaat.

  12. Spike train analysis toolkit: enabling wider application of information-theoretic techniques to neurophysiology.

    Science.gov (United States)

    Goldberg, David H; Victor, Jonathan D; Gardner, Esther P; Gardner, Daniel

    2009-09-01

    Conventional methods widely available for the analysis of spike trains and related neural data include various time- and frequency-domain analyses, such as peri-event and interspike interval histograms, spectral measures, and probability distributions. Information theoretic methods are increasingly recognized as significant tools for the analysis of spike train data. However, developing robust implementations of these methods can be time-consuming, and determining applicability to neural recordings can require expertise. In order to facilitate more widespread adoption of these informative methods by the neuroscience community, we have developed the Spike Train Analysis Toolkit. STAToolkit is a software package which implements, documents, and guides application of several information-theoretic spike train analysis techniques, thus minimizing the effort needed to adopt and use them. This implementation behaves like a typical Matlab toolbox, but the underlying computations are coded in C for portability, optimized for efficiency, and interfaced with Matlab via the MEX framework. STAToolkit runs on any of three major platforms: Windows, Mac OS, and Linux. The toolkit reads input from files with an easy-to-generate text-based, platform-independent format. STAToolkit, including full documentation and test cases, is freely available open source via http://neuroanalysis.org , maintained as a resource for the computational neuroscience and neuroinformatics communities. Use cases drawn from somatosensory and gustatory neurophysiology, and community use of STAToolkit, demonstrate its utility and scope.

  13. The hard parts of the Cambrian Explosion: a palaeobiological approach to testing the 'biomineralization toolkit' hypothesis

    Science.gov (United States)

    Murdock, Duncan

    2017-04-01

    The Cambrian Explosion was the most dramatic event in the history of animal life on Earth, yet the processes underlying it are poorly understood not least the role of biomineralization in driving this fundamental evolutionary episode. One explanation for this event, based on observations on the developmental and molecular biology of modern organisms, is that all animals inherited a common 'toolkit' of genes, independently co-opted to similar tasks, including building skeletons. This initially imprecise 'toolkit' was subsequently honed by the acquisition of more and more complex gene regulatory networks. This predicts that animal skeletons, and by inference their organic frameworks, should exhibit a higher degree of morphological plasticity at their origin than later in their evolutionary history - a prediction that is virtually untested. Here I set out a new approach to testing this prediction, by quantifying the phenotypic variation displayed in fossil remains of some of the earliest animal skeletons, over multiple scales from microscopic variations in their component biominerals to how skeletons themselves are put together. This approach will provide direct evidence to test the importance of the genetic basis of the skeleton in the origin of the animals, making a significant contribution to our understanding of this crucial event in the history of life on Earth, including the evolution of our own ancestors.

  14. Clinical Trial of a Home Safety Toolkit for Alzheimer’s Disease

    Directory of Open Access Journals (Sweden)

    Kathy J. Horvath

    2013-01-01

    Full Text Available This randomized clinical trial tested a new self-directed educational intervention to improve caregiver competence to create a safer home environment for persons with dementia living in the community. The sample included 108 patient/caregiver dyads: the intervention group (n=60 received the Home Safety Toolkit (HST, including a new booklet based on health literacy principles, and sample safety items to enhance self-efficacy to make home safety modifications. The control group (n=48 received customary care. Participants completed measures at baseline and at twelve-week follow-up. Multivariate Analysis of Covariance (MANCOVA was used to test for significant group differences. All caregiver outcome variables improved in the intervention group more than in the control. Home safety was significant at P≤0.001, caregiver strain at P≤0.001, and caregiver self-efficacy at P=0.002. Similarly, the care receiver outcome of risky behaviors and accidents was lower in the intervention group (P≤0.001. The self-directed use of this Home Safety Toolkit activated the primary family caregiver to make the home safer for the person with dementia of Alzheimer's type (DAT or related disorder. Improving the competence of informal caregivers is especially important for patients with DAT in light of all stakeholders reliance on their unpaid care.

  15. Cluster Randomized Trial of a Toolkit and Early Vaccine Delivery to Improve Childhood Influenza Vaccination Rates in Primary Care

    Science.gov (United States)

    Zimmerman, Richard K.; Nowalk, Mary Patricia; Lin, Chyongchiou Jeng; Hannibal, Kristin; Moehling, Krissy K.; Huang, Hsin-Hui; Matambanadzo, Annamore; Troy, Judith; Allred, Norma J.; Gallik, Greg; Reis, Evelyn C.

    2014-01-01

    Purpose To increase childhood influenza vaccination rates using a toolkit and early vaccine delivery in a randomized cluster trial. Methods Twenty primary care practices treating children (range for n=536-8,183) were randomly assigned to Intervention and Control arms to test the effectiveness of an evidence-based practice improvement toolkit (4 Pillars Toolkit) and early vaccine supplies for use among disadvantaged children on influenza vaccination rates among children 6 months-18 years. Follow-up staff meetings and surveys were used to assess use and acceptability of the intervention strategies in the Intervention arm. Rates for the 2010-2011 and 2011-2012 influenza seasons were compared. Two-level generalized linear mixed modeling was used to evaluate outcomes. Results Overall increases in influenza vaccination rates were significantly greater in the Intervention arm (7.9 percentage points) compared with the Control arm (4.4 percentage points; P58% did not significantly increase. In regression analyses, a child's likelihood of being vaccinated was significantly higher with: younger age, white race (Odds ratio [OR]=1.29; 95% confidence interval [CI]=1.23-1.34), having commercial insurance (OR=1.30; 95%CI=1.25-1.35), higher pre-intervention practice vaccination rate (OR=1.25; 95%CI=1.16-1.34), and being in the Intervention arm (OR=1.23; 95%CI=1.01-1.50). Early delivery of influenza vaccine was rated by Intervention practices as an effective strategy for raising rates. Conclusions Implementation of a multi-strategy toolkit and early vaccine supplies can significantly improve influenza vaccination rates among children in primary care practices but the effect may be less pronounced in practices with moderate to high existing vaccination rates. PMID:24793941

  16. Modulation Based on Probability Density Functions

    Science.gov (United States)

    Williams, Glenn L.

    2009-01-01

    A proposed method of modulating a sinusoidal carrier signal to convey digital information involves the use of histograms representing probability density functions (PDFs) that characterize samples of the signal waveform. The method is based partly on the observation that when a waveform is sampled (whether by analog or digital means) over a time interval at least as long as one half cycle of the waveform, the samples can be sorted by frequency of occurrence, thereby constructing a histogram representing a PDF of the waveform during that time interval.

  17. Density Functional Approach Based on Numerically Obtained Bridge Functional

    Institute of Scientific and Technical Information of China (English)

    ZHOUShi-Qi

    2002-01-01

    The ornstein-zenike equation is solved with the Rogers-Young approximation for bulk hard sphere fluid and Lennard-Jones fluid for several state points.Then the resulted bulk fluid radial distribution function combined with the test particle method is employed to determine numerically the function relationship of bridge functional as a function of indirect correlation function.It is found that all of the calculated points from different phase space state points for a same type of fluid collapse onto a same smooth curve.Then the numerically obtained curve is used to substitute the analytic expression of the bridge functional as a function of indirect correlation function required in the methodology [J.Chem.Phys,112(2000)8079] to determine the density distribution of non-uniform hard sphere fluid and Lennard-Jones fluid.The good agreement of theoretical predictions with the computer simulation data is obtained.The present numerical procedure incroporates the knowledge of bulk fluid radial distribution function into the constructing of the density functional approximation and makes the original methodology more accurate and more filexible for various interaction potential fluid.

  18. Action research Toolkit II: The Scenario Workshop

    DEFF Research Database (Denmark)

    Rasmussen, Lauge Baungaard

    2003-01-01

    The article describes the scenario workshop within the action research paradigm. In addtion, the maina phases and the functions of the facilitator and the participants are outlined. Finally,it describes and analyses the experiences of using the scenario workshop in practice....

  19. Surface Functionalization of Graphene-based Materials

    Science.gov (United States)

    Mathkar, Akshay

    Graphene-based materials have generated tremendous interest in the past decade. Manipulating their characteristics using wet-chemistry methods holds distinctive value, as it provides a means towards scaling up, while not being limited by yield. The majority of this thesis focuses on the surface functionalization of graphene oxide (GO), which has drawn tremendous attention as a tunable precursor due to its readily chemically manipulable surface and richly functionalized basal plane. Firstly, a room-temperature based method is presented to reduce GO stepwise, with each organic moiety being removed sequentially. Characterization confirms the carbonyl group to be reduced first, while the tertiary alcohol is reduced last, as the optical gap decrease from 3.5 eV down to 1 eV. This provides greater control over GO, which is an inhomogeneous system, and is the first study to elucidate the order of removal of each functional group. In addition to organically manipulating GO, this thesis also reports a chemical methodology to inorganically functionalize GO and tune its wetting characteristics. A chemical method to covalently attach fluorine atoms in the form of tertiary alkyl fluorides is reported, and confirmed by MAS 13C NMR, as two forms of fluorinated graphene oxide (FGO) with varying C/F and C/O ratios are synthesized. Introducing C-F bonds decreases the overall surface free energy, which drastically reduces GO's wetting behavior, especially in its highly fluorinated form. Ease of solution processing leads to development of sprayable inks that are deposited on a range of porous and nonporous surfaces to impart amphiphobicity. This is the first report that tunes the wetting characteristics of GO. Lastly as a part of a collaboration with ConocoPhillips, another class of carbon nanomaterials - carbon nanotubes (CNTs), have been inorganically functionalized to repel 30 wt% MEA, a critical solvent in CO 2 recovery. In addition to improving the solution processability of CNTs

  20. Global GPP based on Plant Functional Types

    Science.gov (United States)

    Veroustraete, Frank; Balzarolo, Manuela

    2016-04-01

    Vegetation variables like Gross Primary productivity (GPP) and the Normalized Difference Vegetation Index (NDVI) are key variables in vegetation carbon exchange studies. Field measurements of the NDVI are time consuming due to landscape heterogeneity across time. Typically a sampling protocol adopted during field campaigns is based on the VALERI protocol in that case toe estimate LAI. Field campaign GPP or NDVI measurements can be scaled up to using in-situ FLUXNET radiation raster maps. Regression analysis can then be applied to construct transfer functions for the determination of GPP raster maps raster imagery from Normalized Difference Vegetation Index (NDVI) raster maps derived from in-situ FLUXNET radiation raster maps. Subsequently, in the VALERI approach the scaling up of raster maps is performed by aggregation of high resolution in-situ FLUXNET radiation raster maps data into high resolution raster maps and subsequently aggregating these to 1x1 km MODIS NDVI raster maps by calculating average NDVI values for the low resolution data. The up-scaled 1x1 km pixels are then used to validate the MODIS GPP and NVI products. Hence up scaling based on in-situ FLUXNET radiation measurements are not a luxury for large and heterogeneous sites. Therefore this paper tackles the problem of up scaling using in-situ FLUXNET radiation measurements. Key Words: FLUXNET, GPP, Plant Functional Types, Up-scaling

  1. Density Functional Approach Based on Numerically Obtained Bridge Functional

    Institute of Scientific and Technical Information of China (English)

    ZHOU Shi-Qi

    2002-01-01

    The Ornstein Zernike equation is solved with the Rogers Young approximation for bulk hard sphere fluidand Lennard-Jones fluid for several state points. Then the resulted bulk fluid radial distribution function combinedwith the test particle method is employed to determine numerically the function relationship of bridge functional as afunction of indirect correlation function. It is found that all of the calculated points from different phase space statepoints for a same type of fluid collapse onto a same smooth curve. Then the numerically obtained curve is used tosubstitute the analytic expression of the bridge functional as a function of indirect correlation function required in themethodology [J. Chem. Phys. 112 (2000) 8079] to deterrnine the density distribution of non-uniform hard spherefluid and Lennard Jones fluid. The good agreement of theoretical predictions with the computer simulation data isobtained. The present numerical procedure incorporates the knowledge of bulk fluid radial distribution function intothe constructing of the density functional approximation and makes the original methodology more accurate and moreflexible for various interaction potential fluid.

  2. Discrete Geometry Toolkit for Shape Optimization Project

    Data.gov (United States)

    National Aeronautics and Space Administration — Simulation-based design optimization has been steadily maturing over the past two decades, but not without its own unique and persistent challenges. The proposed...

  3. Discrete Geometry Toolkit for Shape Optimization Project

    Data.gov (United States)

    National Aeronautics and Space Administration — Simulation-based design optimization has been steadily maturing over the past two decades, but not without its own unique and persistent challenges. The proposed...

  4. A basic analysis toolkit for biological sequences

    Directory of Open Access Journals (Sweden)

    Siragusa Enrico

    2007-09-01

    Full Text Available Abstract This paper presents a software library, nicknamed BATS, for some basic sequence analysis tasks. Namely, local alignments, via approximate string matching, and global alignments, via longest common subsequence and alignments with affine and concave gap cost functions. Moreover, it also supports filtering operations to select strings from a set and establish their statistical significance, via z-score computation. None of the algorithms is new, but although they are generally regarded as fundamental for sequence analysis, they have not been implemented in a single and consistent software package, as we do here. Therefore, our main contribution is to fill this gap between algorithmic theory and practice by providing an extensible and easy to use software library that includes algorithms for the mentioned string matching and alignment problems. The library consists of C/C++ library functions as well as Perl library functions. It can be interfaced with Bioperl and can also be used as a stand-alone system with a GUI. The software is available at http://www.math.unipa.it/~raffaele/BATS/ under the GNU GPL.

  5. A GIS Software Toolkit for Monitoring Areal Snow Cover and Producing Daily Hydrologic Forecasts using NASA Satellite Imagery Project

    Data.gov (United States)

    National Aeronautics and Space Administration — Aniuk Consulting, LLC, proposes to create a GIS software toolkit for monitoring areal snow cover extent and producing streamflow forecasts. This toolkit will be...

  6. Application of GEANT4 radiation transport toolkit to dose calculations in anthropomorphic phantoms

    CERN Document Server

    Rodrigues, P; Peralta, L; Alves, C; Chaves, A; Lopes, M C

    2003-01-01

    In this paper we present the implementation of a dose calculation application, based on the GEANT4 Monte Carlo toolkit. Validation studies were performed with an homogeneous water phantom and an Alderson--Rando anthropomorphic phantom both irradiated with high--energy photon beams produced by a clinical linear accelerator. As input, this tool requires computer tomography images for automatic codification of voxel based geometries and phase space distributions to characterize the incident radiation field. Simulation results were compared with ionization chamber, thermoluminescent dosimetry data and commercial treatment planning system calculations. In homogeneous water phantom, overall agreement with measurements were within 1--2%. For anthropomorphic simulated setups (thorax and head irradiation) mean differences between GEANT4 and TLD measurements were less than 2%. Significant differences between GEANT4 and a semi--analytical algorithm implemented in the treatment planning system, were found in low density ...

  7. CONCEPTUAL DETERMINANTS OF FINANCIAL TOOLKIT OF INVESTMENTS

    Directory of Open Access Journals (Sweden)

    Halyapin A. A.

    2015-10-01

    Full Text Available In the article, we have carried out an analysis of theoretical and conceptual positions of financial tools of investment. During the research, the concept of “investment analysis” has been specified and ordering of classifications of financial tools has been performed. The article has a research character, because it suggests the basic approaches to estimation of the cost of financial investments and the models of estimation of the cost of financial tools of investment. One of the major factors defining appeal of the market for investors and efficiency of its functioning is the tools that were designed for fulfilling equitable interests of participants and allowing them to carry out the functions effectively. The analysis of a modern condition of the financial market of Russia is lead and it was revealed, that the part of transactions with the Russian actions is carried out at foreign stock exchanges for already more than decade. There of problems and directions on effective development of the national financial market are allocated. The potential of the market of financial tools in Russia is not opened yet completely and gives prospect for development of methods and ways of complex influence on its factors causing. In this connection the separate attention is deserved with the offered necessary conditions of its successful development

  8. Function Optimization Based on Quantum Genetic Algorithm

    Directory of Open Access Journals (Sweden)

    Ying Sun

    2014-01-01

    Full Text Available Optimization method is important in engineering design and application. Quantum genetic algorithm has the characteristics of good population diversity, rapid convergence and good global search capability and so on. It combines quantum algorithm with genetic algorithm. A novel quantum genetic algorithm is proposed, which is called Variable-boundary-coded Quantum Genetic Algorithm (vbQGA in which qubit chromosomes are collapsed into variable-boundary-coded chromosomes instead of binary-coded chromosomes. Therefore much shorter chromosome strings can be gained. The method of encoding and decoding of chromosome is first described before a new adaptive selection scheme for angle parameters used for rotation gate is put forward based on the core ideas and principles of quantum computation. Eight typical functions are selected to optimize to evaluate the effectiveness and performance of vbQGA against standard Genetic Algorithm (sGA and Genetic Quantum Algorithm (GQA. The simulation results show that vbQGA is significantly superior to sGA in all aspects and outperforms GQA in robustness and solving velocity, especially for multidimensional and complicated functions.

  9. Pydpiper: a flexible toolkit for constructing novel registration pipelines

    Science.gov (United States)

    Friedel, Miriam; van Eede, Matthijs C.; Pipitone, Jon; Chakravarty, M. Mallar; Lerch, Jason P.

    2014-01-01

    Using neuroimaging technologies to elucidate the relationship between genotype and phenotype and brain and behavior will be a key contribution to biomedical research in the twenty-first century. Among the many methods for analyzing neuroimaging data, image registration deserves particular attention due to its wide range of applications. Finding strategies to register together many images and analyze the differences between them can be a challenge, particularly given that different experimental designs require different registration strategies. Moreover, writing software that can handle different types of image registration pipelines in a flexible, reusable and extensible way can be challenging. In response to this challenge, we have created Pydpiper, a neuroimaging registration toolkit written in Python. Pydpiper is an open-source, freely available software package that provides multiple modules for various image registration applications. Pydpiper offers five key innovations. Specifically: (1) a robust file handling class that allows access to outputs from all stages of registration at any point in the pipeline; (2) the ability of the framework to eliminate duplicate stages; (3) reusable, easy to subclass modules; (4) a development toolkit written for non-developers; (5) four complete applications that run complex image registration pipelines “out-of-the-box.” In this paper, we will discuss both the general Pydpiper framework and the various ways in which component modules can be pieced together to easily create new registration pipelines. This will include a discussion of the core principles motivating code development and a comparison of Pydpiper with other available toolkits. We also provide a comprehensive, line-by-line example to orient users with limited programming knowledge and highlight some of the most useful features of Pydpiper. In addition, we will present the four current applications of the code. PMID:25126069

  10. Pydpiper: A Flexible Toolkit for Constructing Novel Registration Pipelines

    Directory of Open Access Journals (Sweden)

    Miriam eFriedel

    2014-07-01

    Full Text Available Using neuroimaging technologies to elucidate the relationship between genotype and phenotype and brain and behavior will be a key contribution to biomedical research in the twenty-first century. Among the many methods for analyzing neuroimaging data, image registration deserves particular attention due to its wide range of applications. Finding strategies to register together many images and analyze the differences between them can be a challenge, particularly given that different experimental designs require different registration strategies. Moreover, writing software that can handle different types of image registration pipelines in a flexible, reusable and extensible way can be challenging. In response to this challenge, we have created Pydpiper, a neuroimaging registration toolkit written in Python. Pydpiper is an open-source, freely available pipeline framework that provides multiple modules for various image registration applications. Pydpiper offers five key innovations. Specifically: (1 a robust file handling class that allows access to outputs from all stages of registration at any point in the pipeline; (2 the ability of the framework to eliminate duplicate stages; (3 reusable, easy to subclass modules; (4 a development toolkit written for non-developers; (5 four complete applications that run complex image registration pipelines ``out-of-the-box.'' In this paper, we will discuss both the general Pydpiper framework and the various ways in which component modules can be pieced together to easily create new registration pipelines. This will include a discussion of the core principles motivating code development and a comparison of Pydpiper with other available toolkits. We also provide a comprehensive, line-by-line example to orient users with limited programming knowledge and highlight some of the most useful features of Pydpiper. In addition, we will present the four current applications of the code.

  11. Toolkit of Available EPA Green Infrastructure Modeling Software. National Stormwater Calculator

    Science.gov (United States)

    This webinar will present a toolkit consisting of five EPA green infrastructure models and tools, along with communication material. This toolkit can be used as a teaching and quick reference resource for use by planners and developers when making green infrastructure implementat...

  12. Classification of Dermal Exposure Modifiers and Assignment of Values for a Risk Assessment Toolkit

    NARCIS (Netherlands)

    Goede, H.A.; Tijssen, S.C.H.A.; Schipper, H.J.; Warren, N.; Oppl, R.; Kalberlah, F.; Hemmen, J.J. van

    2003-01-01

    This paper describes how default dermal exposure values can be adjusted with modifier values for specific work situations. The work presented here is supplementary to a toolkit developed for the EU RISKOFDERM project. This toolkit is intended for the assessment and management of dermal risks in smal

  13. Practitioner Data Use in Schools: Workshop Toolkit. REL 2015-043

    Science.gov (United States)

    Bocala, Candice; Henry, Susan F.; Mundry, Susan; Morgan, Claire

    2014-01-01

    The "Practitioner Data Use in Schools: Workshop Toolkit" is designed to help practitioners systematically and accurately use data to inform their teaching practice. The toolkit includes an agenda, slide deck, participant workbook, and facilitator's guide and covers the following topics: developing data literacy, engaging in a cycle of…

  14. Toolkit for Evaluating Alignment of Instructional and Assessment Materials to the Common Core State Standards

    Science.gov (United States)

    Achieve, Inc., 2014

    2014-01-01

    In joint partnership, Achieve, The Council of Chief State School Officers, and Student Achievement Partners have developed a Toolkit for Evaluating the Alignment of Instructional and Assessment Materials to the Common Core State Standards. The Toolkit is a set of interrelated, freely available instruments for evaluating alignment to the CCSS; each…

  15. Scoping review of toolkits as a knowledge translation strategy in health

    OpenAIRE

    Barac, Raluca; Stein, Sherry; Bruce, Beth; Barwick, Melanie

    2014-01-01

    Background Significant resources are invested in the production of research knowledge with the ultimate objective of integrating research evidence into practice. Toolkits are becoming increasingly popular as a knowledge translation (KT) strategy for disseminating health information, to build awareness, inform, and change public and healthcare provider behavior. Toolkits communicate messages aimed at improving health and changing practice to diverse audiences, including healthcare practitioner...

  16. Toolkit for a Workshop on Building a Culture of Data Use. REL 2015-063

    Science.gov (United States)

    Gerzon, Nancy; Guckenburg, Sarah

    2015-01-01

    The Culture of Data Use Workshop Toolkit helps school and district teams apply research to practice as they establish and support a culture of data use in their educational setting. The field-tested workshop toolkit guides teams through a set of structured activities to develop an understanding of data-use research in schools and to analyze…

  17. Introducing trimming and function ranking to Solid Works based on function analysis

    NARCIS (Netherlands)

    Chechurin, Leonid S.; Wits, Wessel W.; Bakker, Hans M.; Vaneker, Tom H.J.; Cascini, G.; Vaneker, T.H.J.

    2011-01-01

    TRIZ based Function Analysis models existing products based on functional interactions between product parts. Such a function model description is the ideal starting point for product innovation. Design engineers can apply (TRIZ) methods such as trimming and function ranking to this function model t

  18. Introducing Trimming and Function Ranking to SolidWorks based on Function Analysis

    NARCIS (Netherlands)

    Chechurin, L.S.; Wits, W.W.; Bakker, H.M.; Vaneker, T.H.J.

    2015-01-01

    TRIZ based Function Analysis models existing products based on functional interactions between product parts. Such a function model description is the ideal starting point for product innovation. Design engineers can apply (TRIZ) methods such as trimming and function ranking to this function model t

  19. Introducing Trimming and Function Ranking to SolidWorks based on Function Analysis

    NARCIS (Netherlands)

    Chechurin, L.S.; Wits, Wessel Willems; Bakker, Hans M.; Vaneker, Thomas H.J.

    2015-01-01

    TRIZ based Function Analysis models existing products based on functional interactions between product parts. Such a function model description is the ideal starting point for product innovation. Design engineers can apply (TRIZ) methods such as trimming and function ranking to this function model

  20. Automatic Scheme Selection for Toolkit Hex Meshing

    Energy Technology Data Exchange (ETDEWEB)

    TAUTGES,TIMOTHY J.; WHITE,DAVID R.

    1999-09-27

    Current hexahedral mesh generation techniques rely on a set of meshing tools, which when combined with geometry decomposition leads to an adequate mesh generation process. Of these tools, sweeping tends to be the workhorse algorithm, accounting for at least 50% of most meshing applications. Constraints which must be met for a volume to be sweepable are derived, and it is proven that these constraints are necessary but not sufficient conditions for sweepability. This paper also describes a new algorithm for detecting extruded or sweepable geometries. This algorithm, based on these constraints, uses topological and local geometric information, and is more robust than feature recognition-based algorithms. A method for computing sweep dependencies in volume assemblies is also given. The auto sweep detect and sweep grouping algorithms have been used to reduce interactive user time required to generate all-hexahedral meshes by filtering out non-sweepable volumes needing further decomposition and by allowing concurrent meshing of independent sweep groups. Parts of the auto sweep detect algorithm have also been used to identify independent sweep paths, for use in volume-based interval assignment.

  1. TECA: A Parallel Toolkit for Extreme Climate Analysis

    Energy Technology Data Exchange (ETDEWEB)

    Prabhat, Mr; Ruebel, Oliver; Byna, Surendra; Wu, Kesheng; Li, Fuyu; Wehner, Michael; Bethel, E. Wes

    2012-03-12

    We present TECA, a parallel toolkit for detecting extreme events in large climate datasets. Modern climate datasets expose parallelism across a number of dimensions: spatial locations, timesteps and ensemble members. We design TECA to exploit these modes of parallelism and demonstrate a prototype implementation for detecting and tracking three classes of extreme events: tropical cyclones, extra-tropical cyclones and atmospheric rivers. We process a modern TB-sized CAM5 simulation dataset with TECA, and demonstrate good runtime performance for the three case studies.

  2. A Machine Learning and Optimization Toolkit for the Swarm

    Science.gov (United States)

    2014-11-17

    Swarm   Ilge  Akkaya,  Shuhei  Emoto...3. DATES COVERED 00-00-2014 to 00-00-2014 4. TITLE AND SUBTITLE A Machine Learning and Optimization Toolkit for the Swarm 5a. CONTRACT NUMBER...design  by   •  Exploi0ng  component-­‐level  interac0ons  in  the   swarm   •  Restoring  the  system  level  roots

  3. Formal verification an essential toolkit for modern VLSI design

    CERN Document Server

    Seligman, Erik; Kumar, M V Achutha Kiran

    2015-01-01

    Formal Verification: An Essential Toolkit for Modern VLSI Design presents practical approaches for design and validation, with hands-on advice for working engineers integrating these techniques into their work. Building on a basic knowledge of System Verilog, this book demystifies FV and presents the practical applications that are bringing it into mainstream design and validation processes at Intel and other companies. The text prepares readers to effectively introduce FV in their organization and deploy FV techniques to increase design and validation productivity. Presents formal verific

  4. YAP. Yet another partial-wave-analysis toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Di Giglio, Paolo; Greenwald, Daniel; Rauch, Johannes [TUM, Munich (Germany)

    2016-07-01

    We present a new C++ library: YAP, the Yet Another Partial-wave-analysis toolkit. The library calculates amplitudes for multibody particle decays in several model frameworks. It is intended for the analysis of spin-0 heavy mesons, but is programmed with the flexibility to handle other decays. The library implements isobar decompositions, K-matrix formalism, and model-independent approaches for mass-dependent amplitudes; and both Wigner rotation and Zemach (for 3 particles) formalism for spin amplitudes. We introduce the software and give example use cases.

  5. Benchmarking the Collocation Stand-Alone Library and Toolkit (CSALT)

    Science.gov (United States)

    Hughes, Steven; Knittel, Jeremy; Shoan, Wendy; Kim, Youngkwang; Conway, Claire; Conway, Darrel J.

    2017-01-01

    This paper describes the processes and results of Verification and Validation (VV) efforts for the Collocation Stand Alone Library and Toolkit (CSALT). We describe the test program and environments, the tools used for independent test data, and comparison results. The VV effort employs classical problems with known analytic solutions, solutions from other available software tools, and comparisons to benchmarking data available in the public literature. Presenting all test results are beyond the scope of a single paper. Here we present high-level test results for a broad range of problems, and detailed comparisons for selected problems.

  6. The Rome Laboratory Reliability Engineer’s Toolkit

    Science.gov (United States)

    1993-04-01

    Optics - Cable Bend Radius 200% 200% 200% (% of Minimum Rated) Cable Tension 50% 50% 50% (% Rated Tensile Strength) Fiber Tension 209/6 20% 20% (% Proof...all equipment of water to prevent freezing or broken pipes . ROME LABORATORY RELIABILITY ENGINEER’S TOOLKIT 63 DESIGN - TOPIC D6 - Control relative...Pister Grp ) 2551 Riva Road PO Box 38042 Annapolis MD 21401 550 Eglinton Ave, West (301)266-4650 Toronto Ontario, M5N 3A8 (416)886-9470 3. Automated

  7. The toolkit for multivariate data analysis TMVA 4

    CERN Document Server

    Speckmayer, P; Stelzer, J; Voss, H

    2010-01-01

    The toolkit for multivariate analysis, TMVA, provides a large set of advanced multivariate analysis techniques for signal/background classification. In addition, TMVA now also contains regression analysis, all embedded in a framework capable of handling the preprocessing of the data and the evaluation of the output, thus allowing a simple and convenient use of multivariate techniques. The analysis techniques implemented in TMVA can be invoked easily and the direct comparison of their performance allows the user to choose the most appropriate for a particular data analysis. This article gives an overview of the TMVA package and presents recently developed features.

  8. A Toolkit for bulk PCR-based marker design from next-generation sequence data: application for development of a framework linkage map in bulb onion (Allium cepa L.

    Directory of Open Access Journals (Sweden)

    Baldwin Samantha

    2012-11-01

    Full Text Available Abstract Background Although modern sequencing technologies permit the ready detection of numerous DNA sequence variants in any organisms, converting such information to PCR-based genetic markers is hampered by a lack of simple, scalable tools. Onion is an example of an under-researched crop with a complex, heterozygous genome where genome-based research has previously been hindered by limited sequence resources and genetic markers. Results We report the development of generic tools for large-scale web-based PCR-based marker design in the Galaxy bioinformatics framework, and their application for development of next-generation genetics resources in a wide cross of bulb onion (Allium cepa L.. Transcriptome sequence resources were developed for the homozygous doubled-haploid bulb onion line ‘CUDH2150’ and the genetically distant Indian landrace ‘Nasik Red’, using 454™ sequencing of normalised cDNA libraries of leaf and shoot. Read mapping of ‘Nasik Red’ reads onto ‘CUDH2150’ assemblies revealed 16836 indel and SNP polymorphisms that were mined for portable PCR-based marker development. Tools for detection of restriction polymorphisms and primer set design were developed in BioPython and adapted for use in the Galaxy workflow environment, enabling large-scale and targeted assay design. Using PCR-based markers designed with these tools, a framework genetic linkage map of over 800cM spanning all chromosomes was developed in a subset of 93 F2 progeny from a very large F2 family developed from the ‘Nasik Red’ x ‘CUDH2150’ inter-cross. The utility of tools and genetic resources developed was tested by designing markers to transcription factor-like polymorphic sequences. Bin mapping these markers using a subset of 10 progeny confirmed the ability to place markers within 10 cM bins, enabling increased efficiency in marker assignment and targeted map refinement. The major genetic loci conditioning red bulb colour (R and fructan

  9. Evaluation of an Extension-Delivered Resource for Accelerating Progress in Childhood Obesity Prevention: The BEPA-Toolkit

    Science.gov (United States)

    Gunter, Katherine B.; Abi Nader, Patrick; Armington, Amanda; Hicks, John C.; John, Deborah

    2017-01-01

    The Balanced Energy Physical Activity Toolkit, or the BEPA-Toolkit, supports physical activity (PA) programming via Extension in elementary schools. In a pilot study, we evaluated the effectiveness of the BEPA-Toolkit as used by teachers through Supplemental Nutrition Assistance Program Education partnerships. We surveyed teachers (n = 57)…

  10. Obesity and Tobacco Cessation Toolkits: Practical Tips and Tools to Save Lives.

    Science.gov (United States)

    Crowe, Susan D; Gregg, Laurie C; DeFrancesco, Mark S

    2016-12-01

    Both obesity and smoking are public health burdens that together contribute to approximately one third of the deaths annually in the United States. In 2015, under the direction of Dr. Mark DeFrancesco, the American College of Obstetricians and Gynecologists convened two workgroups with the purpose of creating toolkits that bring together information that the obstetrician-gynecologist can use to address these preventable health problems. An Obesity Prevention and Treatment Workgroup and a Tobacco and Nicotine Cessation Workgroup developed toolkits on Obesity Prevention and Treatment (www.acog.org/ObesityToolkit)andTobaccoandNicotineCessation(www.acog.org/TobaccoToolkit). The toolkits contain specific talking points, counseling methods, and algorithms to address these health concerns in a supportive, efficient, and effective manner. By including these methods in practice, clinicians can help prevent the tragedy of early deaths caused by obesity, tobacco, and nicotine use.

  11. Incorporating genomics into the toolkit of nematology.

    Science.gov (United States)

    Dillman, Adler R; Mortazavi, Ali; Sternberg, Paul W

    2012-06-01

    The study of nematode genomes over the last three decades has relied heavily on the model organism Caenorhabditis elegans, which remains the best-assembled and annotated metazoan genome. This is now changing as a rapidly expanding number of nematodes of medical and economic importance have been sequenced in recent years. The advent of sequencing technologies to achieve the equivalent of the $1000 human genome promises that every nematode genome of interest will eventually be sequenced at a reasonable cost. As the sequencing of species spanning the nematode phylum becomes a routine part of characterizing nematodes, the comparative approach and the increasing use of ecological context will help us to further understand the evolution and functional specializations of any given species by comparing its genome to that of other closely and more distantly related nematodes. We review the current state of nematode genomics and discuss some of the highlights that these genomes have revealed and the trend and benefits of ecological genomics, emphasizing the potential for new genomes and the exciting opportunities this provides for nematological studies.

  12. Development of a practical toolkit using participatory action research to address health inequalities through NGOs in the UK: Challenges and lessons learned.

    Science.gov (United States)

    Chirewa, Blessing

    2012-09-01

    This study aimed to develop a practical toolkit to support non-government organizations (NGOs) in tackling health inequalities in the UK and to highlight the challenges and lessons learned. A mixed qualitative methodology within an action research framework was conducted. Semi-structured questionnaires, focus group interviews and discussions with an expert reference group aimed to identify the important themes and produce the toolkit content. A practical guide of information materials for NGOs working on addressing health inequalities was subsequently developed and successfully piloted. The experience of using participatory action research revealed a number of lessons and challenges. The key challenges were lack of training and experience in conducting action research, costs and insufficient resources, slow and time-consuming process, lack of commitment from marginalized groups, and differences in emphasis of goals and vision among participants. The main lessons learned were importance of effective leadership and project management skills, importance of integrating researchers and the researched as equal partners, creation and nurturing of trust, importance of evaluating and piloting processes, importance of engaging with marginalized groups, and use of evidence base in decision making. The lessons and challenges enumerating herein are of value to researchers aiming to implement participatory action research in developing checklists, tools, practical guidance and frameworks, and they offer important areas to consider before starting such projects. In addition, this offers an insight into how the dynamics of participatory action research methodology evolved in the development of the toolkit. Future research and initiatives in this area should focus on ways to improve the toolkit and make it more relevant to a wider community, and methods for evaluating the impact of the toolkit on practice.

  13. Simulation of Auger electron emission from nanometer-size gold targets using the Geant4 Monte Carlo simulation toolkit

    Science.gov (United States)

    Incerti, S.; Suerfu, B.; Xu, J.; Ivantchenko, V.; Mantero, A.; Brown, J. M. C.; Bernal, M. A.; Francis, Z.; Karamitros, M.; Tran, H. N.

    2016-04-01

    A revised atomic deexcitation framework for the Geant4 general purpose Monte Carlo toolkit capable of simulating full Auger deexcitation cascades was implemented in June 2015 release (version 10.2 Beta). An overview of this refined framework and testing of its capabilities is presented for the irradiation of gold nanoparticles (NP) with keV photon and MeV proton beams. The resultant energy spectra of secondary particles created within and that escape the NP are analyzed and discussed. It is anticipated that this new functionality will improve and increase the use of Geant4 in the medical physics, radiobiology, nanomedicine research and other low energy physics fields.

  14. Simulation of Auger electron emission from nanometer-size gold targets using the Geant4 Monte Carlo simulation toolkit

    Energy Technology Data Exchange (ETDEWEB)

    Incerti, S., E-mail: sebastien.incerti@tdt.edu.vn [Division of Nuclear Physics, Ton Duc Thang University, Tan Phong Ward, District 7, Ho Chi Minh City (Viet Nam); Faculty of Applied Sciences, Ton Duc Thang University, Tan Phong Ward, District 7, Ho Chi Minh City (Viet Nam); Univ. Bordeaux, CENBG, UMR 5797, F-33170 Gradignan (France); CNRS, IN2P3, CENBG, UMR 5797, F-33170 Gradignan (France); Suerfu, B.; Xu, J. [Department of Physics, Princeton University, Princeton, NJ (United States); Ivantchenko, V. [Ecoanalytica, Moscow (Russian Federation); Geant4 Associates International Ltd, Hebden Bridge (United Kingdom); Mantero, A. [SWHARD srl, via Greto di Cornigliano 6r, 16152 Genova (Italy); Brown, J.M.C. [School of Mathematics and Physics, Queen’s University Belfast, Belfast, Northern Ireland (United Kingdom); Bernal, M.A. [Instituto de Física Gleb Wataghin, Universidade Estadual de Campinas, SP (Brazil); Francis, Z. [Université Saint Joseph, Faculty of Sciences, Department of Physics, Beirut (Lebanon); Karamitros, M. [Notre Dame Radiation Laboratory, University of Notre Dame, Notre Dame, IN (United States); Tran, H.N. [Division of Nuclear Physics, Ton Duc Thang University, Tan Phong Ward, District 7, Ho Chi Minh City (Viet Nam); Faculty of Applied Sciences, Ton Duc Thang University, Tan Phong Ward, District 7, Ho Chi Minh City (Viet Nam)

    2016-04-01

    A revised atomic deexcitation framework for the Geant4 general purpose Monte Carlo toolkit capable of simulating full Auger deexcitation cascades was implemented in June 2015 release (version 10.2 Beta). An overview of this refined framework and testing of its capabilities is presented for the irradiation of gold nanoparticles (NP) with keV photon and MeV proton beams. The resultant energy spectra of secondary particles created within and that escape the NP are analyzed and discussed. It is anticipated that this new functionality will improve and increase the use of Geant4 in the medical physics, radiobiology, nanomedicine research and other low energy physics fields.

  15. The ALMA Data Mining Toolkit II: Using ADMIT on Data Mined from the ALMA Archive

    Science.gov (United States)

    Friedel, D. N.; Looney, L.; Mundy, L.; Pound, M.; Teuben, P.

    2014-05-01

    Following the accompanying ADMIT (the ALMA Data Mining Toolkit) paper by Teuben et al. (2013), we explore the power of the ADMIT schema. ADMIT could be used to data mine across multiple ALMA datasets, projects, or sources, adding value to the ALMA archive. ADMIT will be capable of defining a set of sources in a local virtual project. This project could have the ADMIT analyses recomputed in a common fashion, or to a common level, and add new data products. The sources in the virtual project could also be grouped based on similarities, either by the user or due to decisions made by ADMIT, and have their data abstracted for further analysis and visualization inside or outside of ADMIT in a native Python environment. In this paper we describe the design and techniques of this capability.

  16. The Communities Advancing Resilience Toolkit (CART): an intervention to build community resilience to disasters.

    Science.gov (United States)

    Pfefferbaum, Rose L; Pfefferbaum, Betty; Van Horn, Richard L; Klomp, Richard W; Norris, Fran H; Reissman, Dori B

    2013-01-01

    Community resilience has emerged as a construct to support and foster healthy individual, family, and community adaptation to mass casualty incidents. The Communities Advancing Resilience Toolkit (CART) is a publicly available theory-based and evidence-informed community intervention designed to enhance community resilience by bringing stakeholders together to address community issues in a process that includes assessment, feedback, planning, and action. Tools include a field-tested community resilience survey and other assessment and analytical instruments. The CART process encourages public engagement in problem solving and the development and use of local assets to address community needs. CART recognizes 4 interrelated domains that contribute to community resilience: connection and caring, resources, transformative potential, and disaster management. The primary value of CART is its contribution to community participation, communication, self-awareness, cooperation, and critical reflection and its ability to stimulate analysis, collaboration, skill building, resource sharing, and purposeful action.

  17. The Repeat Pattern Toolkit (RPT): Analyzing the structure and evolution of the C. elegans genome

    Energy Technology Data Exchange (ETDEWEB)

    Agarwal, P.; States, D.J. [Washington Univ., St. Louis, MO (United States)

    1994-12-31

    Over 3.6 million bases of DNA sequence from chromosome III of the C. elegans have been determined. The availability of this extended region of contiguous sequence has allowed us to analyze the nature and prevalence of repetitive sequences in the genome of a eukaryotic organism with a high gene density. We have assembled a Repeat Pattern Toolkit (RPT) to analyze the patterns of repeats occurring in DNA. The tools include identifying significant local alignments (utilizing both two-way and three-way alignments), dividing the set of alignments into connected components (signifying repeat families), computing evolutionary distance between repeat family members, constructing minimum spanning trees from the connected components, and visualizing the evolution of the repeat families. Over 7000 families of repetitive sequences were identified. The size of the families ranged from isolated pairs to over 1600 segments of similar sequence. Approximately 12.3% of the analyzed sequence participates in a repeat element.

  18. Open Plot Project: an open-source toolkit for 3-D structural data analysis

    Directory of Open Access Journals (Sweden)

    S. Tavani

    2010-12-01

    Full Text Available In this work we present the Open Plot Project, a software for structural data analysis including a 3-D environment. This first alpha release represents a stand-alone toolkit for structural data analysis and, due to many import/export facilities and to the presence of a 3-D environment, also candidates as a tool to be incorporated in workflows for 3-D geological modelling.

    The software (for both Windows and Linux O.S., the User Manual, a set of example movies, and the source code are provided as Supplement. It is our purpose that the publication of the source code sets the base for the development of a public and free software that, hopefully, the structural geologists community will use, modify, and implement. The creation of additional public controls/tools is strongly encouraged.

  19. OpenMSI Arrayed Analysis Toolkit: Analyzing Spatially Defined Samples Using Mass Spectrometry Imaging

    DEFF Research Database (Denmark)

    de Raad, Markus; de Rond, Tristan; Rübel, Oliver

    2017-01-01

    processing tools for the analysis of large arrayed MSI sample sets. The OpenMSI Arrayed Analysis Toolkit (OMAAT) is a software package that addresses the challenges of analyzing spatially defined samples in MSI data sets. OMAAT is written in Python and is integrated with OpenMSI (http......://openmsinersc.gov), a platform for storing, sharing, and analyzing MSI data. By using a web-based python notebook (Jupyter), OMAAT is accessible to anyone without programming experience yet allows experienced users to leverage all features. OMAAT was :evaluated by analyzing an MSI data set of a high-throughput glycoside...... hydrolase activity screen comprising 384 samples arrayed onto a NIMS surface at a 450 pm spacing, decreasing analysis time >100-fold while maintaining robust spot-finding. The utility of OMAAT was demonstrated for screening metabolic activities of different sized soil particles, including hydrolysis...

  20. Photovoltaic module V-I and P-V characterization through instrumentation control toolkit of MATLAB

    Directory of Open Access Journals (Sweden)

    Genci Sharko

    2011-11-01

    Full Text Available This paper describes one experimental method for determining the V-I and P-V characteristic of the photovoltaic modules. The short-circuit current (Isc, open-circuit voltage (Voc and the filling coefficient are measured, also. Direct characteristics of V-I and P-V curves under solar irradiance are measured and graphed in real time with system proposed for this reason. It describes the development of an automated monitoring system for a solar PV plant based on the use of Instrumentation Control Toolkit of MatLab Software. PV modules still have relatively low conversion efficiency; therefore, determining and controlling maximum power point tracking (MPPT for the solar array is essential in a PV system.

  1. ChemDoodle Web Components: HTML5 toolkit for chemical graphics, interfaces, and informatics.

    Science.gov (United States)

    Burger, Melanie C

    2015-01-01

    ChemDoodle Web Components (abbreviated CWC, iChemLabs, LLC) is a light-weight (~340 KB) JavaScript/HTML5 toolkit for chemical graphics, structure editing, interfaces, and informatics based on the proprietary ChemDoodle desktop software. The library uses and WebGL technologies and other HTML5 features to provide solutions for creating chemistry-related applications for the web on desktop and mobile platforms. CWC can serve a broad range of scientific disciplines including crystallography, materials science, organic and inorganic chemistry, biochemistry and chemical biology. CWC is freely available for in-house use and is open source (GPL v3) for all other uses.Graphical abstractAdd interactive 2D and 3D chemical sketchers, graphics, and spectra to websites and apps with ChemDoodle Web Components.

  2. Three Instruments in Four Years: The UCO/Lick Data-Driven Toolkit

    Science.gov (United States)

    Allen, S. L.; Clarke, D. A.

    A panoply of new software tools has accompanied the rapid instrument construction schedule at UCO/Lick Observatory (PFCAM to Lick in 1997, ESI to Keck in 1999, DEIMOS to Keck in 2000). These Tcl/Tk-based tools maintain and interact with a relational database of instrument characteristics. They assist software design, generate thousands of lines of code, documentation, and configuration files, facilitate motor-control calibration, permit fully-automated remote testing and evaluation of performance, aid user-interface design, produce diagrams, and serve as a communications nexus between software and hardware teams. The toolkit has greatly reduced the amount of effort required from many UCO/Lick technicians, and has set new standards for quality and performance of the resulting instruments. We present here an overview of these tools and their outputs.

  3. Dual-polarization phase shift processing with the Python ARM Radar Toolkit

    Science.gov (United States)

    Collis, S. M.; Lang, T. J.; Mühlbauer, K.; Helmus, J.; North, K.

    2016-12-01

    Weather radars that measure backscatter returns at two orthogonal polarizations can give unique insight into storm macro and microphysics. Phase shift between the two polarizations caused by anisotropy in the liquid water path can be used as a constraint in rainfall rate and drop size distribution retrievals, and has the added benefit of being robust to attenuation and radar calibration. The measurement is complicated, however, by the impact of phase shift on backscatter in the presence of large drops and when the pulse volume is not filled uniformly by scatterers (known as partial beam filling). This has led to a signal processing challenge of separating the underlying desired signal from the transient signal, a challenge that has attracted many diverse solutions. To this end, the Python-ARM Radar Toolkit (Py-ART) [1] becomes increasingly important. By providing an open architecture for implementation of retrieval techniques, Py-ART has attracted three very different approaches to the phase processing problem: a fully variational technique, a finite impulse response filter technique [2], and a technique based on a linear programming [3]. These either exist within the toolkit or in another open source package that uses the Py-ART architecture. This presentation will provide an overview of differential phase and specific differential phase observed at C- and S-band frequencies, the signal processing behind the three aforementioned techniques, and some examples of their application. The goal of this presentation is to highlight the importance of open source architectures such as Py-ART for geophysical retrievals. [1] Helmus, J.J. & Collis, S.M., (2016). The Python ARM Radar Toolkit (Py-ART), a Library for Working with Weather Radar Data in the Python Programming Language. JORS. 4(1), p.e25. DOI: http://doi.org/10.5334/jors.119[2] Timothy J. Lang, David A. Ahijevych, Stephen W. Nesbitt, Richard E. Carbone, Steven A. Rutledge, and Robert Cifelli, 2007: Radar

  4. Phase 1 Development Report for the SESSA Toolkit.

    Energy Technology Data Exchange (ETDEWEB)

    Knowlton, Robert G.; Melton, Brad J; Anderson, Robert J.

    2014-09-01

    operation of th e SESSA tool kit in order to give the user enough information to start using the tool kit . SESSA is currently a prototype system and this documentation covers the initial release of the tool kit . Funding for SESSA was provided by the Department of Defense (D oD), Assistant Secretary of Defense for Research and Engineering (ASD(R&E)) Rapid Fielding (RF) organization. The project was managed by the Defense Forensic Science Center (DFSC) , formerly known as the U.S. Army Criminal Investigation Laboratory (USACIL) . ACKNOWLEDGEMENTS The authors wish to acknowledge the funding support for the development of the Site Exploitation System for Situational Awareness (SESSA) toolkit from the Department of Defense (DoD), Assistant Secretary of Defense for Research and Engineering (ASD(R&E)) Rapid Fielding (RF) organization. The project was managed by the Defense Forensic Science Center (DFSC) , formerly known as the U.S. Army Criminal Investigation Laboratory (USACIL). Special thanks to Mr. Garold Warner, of DFSC, who served as the Project Manager. Individuals that worked on the design, functional attributes, algorithm development, system arc hitecture, and software programming include: Robert Knowlton, Brad Melton, Robert Anderson, and Wendy Amai.

  5. Evaluation of accuracy of B-spline transformation-based deformable image registration with different parameter settings for thoracic images

    OpenAIRE

    Kanai, Takayuki; Kadoya, Noriyuki; Ito, Kengo; Onozato, Yusuke; Cho, Sang Yong; Kishi, Kazuma; Dobashi, Suguru; Umezawa, Rei; Matsushita, Haruo; Takeda, Ken; Jingu, Keiichi

    2014-01-01

    Deformable image registration (DIR) is fundamental technique for adaptive radiotherapy and image-guided radiotherapy. However, further improvement of DIR is still needed. We evaluated the accuracy of B-spline transformation-based DIR implemented in elastix. This registration package is largely based on the Insight Segmentation and Registration Toolkit (ITK), and several new functions were implemented to achieve high DIR accuracy. The purpose of this study was to clarify whether new functions ...

  6. Integrating the visualization concept of the medical imaging interaction toolkit (MITK) into the XIP-Builder visual programming environment

    Science.gov (United States)

    Wolf, Ivo; Nolden, Marco; Schwarz, Tobias; Meinzer, Hans-Peter

    2010-02-01

    The Medical Imaging Interaction Toolkit (MITK) and the eXtensible Imaging Platform (XIP) both aim at facilitating the development of medical imaging applications, but provide support on different levels. MITK offers support from the toolkit level, whereas XIP comes with a visual programming environment. XIP is strongly based on Open Inventor. Open Inventor with its scene graph-based rendering paradigm was not specifically designed for medical imaging, but focuses on creating dedicated visualizations. MITK has a visualization concept with a model-view-controller like design that assists in implementing multiple, consistent views on the same data, which is typically required in medical imaging. In addition, MITK defines a unified means of describing position, orientation, bounds, and (if required) local deformation of data and views, supporting e.g. images acquired with gantry tilt and curved reformations. The actual rendering is largely delegated to the Visualization Toolkit (VTK). This paper presents an approach of how to integrate the visualization concept of MITK with XIP, especially into the XIP-Builder. This is a first step of combining the advantages of both platforms. It enables experimenting with algorithms in the XIP visual programming environment without requiring a detailed understanding of Open Inventor. Using MITK-based add-ons to XIP, any number of data objects (images, surfaces, etc.) produced by algorithms can simply be added to an MITK DataStorage object and rendered into any number of slice-based (2D) or 3D views. Both MITK and XIP are open-source C++ platforms. The extensions presented in this paper will be available from www.mitk.org.

  7. Multifrequency EPR Spectroscopy: A Toolkit for the Characterization of Mono- and Di-nuclear Metal Ion Centers in Complex Biological Systems

    Science.gov (United States)

    Hanson, Graeme R.

    Metalloenzymes are ubiquitous in nature containing complex metal ion cofactors intimately involved in the enzymes' biological function. The application of multifrequency continuous wave and orientation selective pulsed EPR in conjunction with computer simulation and density functional theory calculations has proven to be a powerful toolkit for the geometric and electronic structural characterization of these metal ion cofactors in the resting enzyme, enzyme-substrate and -product complexes, which in turn provides a detailed understanding of the enzymes' catalytic mechanism. In this chapter, a brief description of the multifrequency EPR toolkit used to structurally (geometric and electronic) characterize metal ion binding sites in complex biological systems and its application in the structural characterization of (i) molybdenum containing enzymes and model complexes, (ii) mono- and di-nuclear copper(II) cyclic peptide complexes (marine and synthetic analogues) and (iii) dinuclear metal ion centers in purple acid phosphatases will be presented.

  8. Small Molecule Subgraph Detector (SMSD toolkit

    Directory of Open Access Journals (Sweden)

    Rahman Syed

    2009-08-01

    Full Text Available Abstract Background Finding one small molecule (query in a large target library is a challenging task in computational chemistry. Although several heuristic approaches are available using fragment-based chemical similarity searches, they fail to identify exact atom-bond equivalence between the query and target molecules and thus cannot be applied to complex chemical similarity searches, such as searching a complete or partial metabolic pathway. In this paper we present a new Maximum Common Subgraph (MCS tool: SMSD (Small Molecule Subgraph Detector to overcome the issues with current heuristic approaches to small molecule similarity searches. The MCS search implemented in SMSD incorporates chemical knowledge (atom type match with bond sensitive and insensitive information while searching molecular similarity. We also propose a novel method by which solutions obtained by each MCS run can be ranked using chemical filters such as stereochemistry, bond energy, etc. Results In order to benchmark and test the tool, we performed a 50,000 pair-wise comparison between KEGG ligands and PDB HET Group atoms. In both cases the SMSD was shown to be more efficient than the widely used MCS module implemented in the Chemistry Development Kit (CDK in generating MCS solutions from our test cases. Conclusion Presently this tool can be applied to various areas of bioinformatics and chemo-informatics for finding exhaustive MCS matches. For example, it can be used to analyse metabolic networks by mapping the atoms between reactants and products involved in reactions. It can also be used to detect the MCS/substructure searches in small molecules reported by metabolome experiments, as well as in the screening of drug-like compounds with similar substructures. Thus, we present a robust tool that can be used for multiple applications, including the discovery of new drug molecules. This tool is freely available on http://www.ebi.ac.uk/thornton-srv/software/SMSD/

  9. Health Equity Assessment Toolkit (HEAT: software for exploring and comparing health inequalities in countries

    Directory of Open Access Journals (Sweden)

    Ahmad Reza Hosseinpoor

    2016-10-01

    Full Text Available Abstract Background It is widely recognised that the pursuit of sustainable development cannot be accomplished without addressing inequality, or observed differences between subgroups of a population. Monitoring health inequalities allows for the identification of health topics where major group differences exist, dimensions of inequality that must be prioritised to effect improvements in multiple health domains, and also population subgroups that are multiply disadvantaged. While availability of data to monitor health inequalities is gradually improving, there is a commensurate need to increase, within countries, the technical capacity for analysis of these data and interpretation of results for decision-making. Prior efforts to build capacity have yielded demand for a toolkit with the computational ability to display disaggregated data and summary measures of inequality in an interactive and customisable fashion that would facilitate interpretation and reporting of health inequality in a given country. Methods To answer this demand, the Health Equity Assessment Toolkit (HEAT, was developed between 2014 and 2016. The software, which contains the World Health Organization’s Health Equity Monitor database, allows the assessment of inequalities within a country using over 30 reproductive, maternal, newborn and child health indicators and five dimensions of inequality (economic status, education, place of residence, subnational region and child’s sex, where applicable. Results/Conclusion HEAT was beta-tested in 2015 as part of ongoing capacity building workshops on health inequality monitoring. This is the first and only application of its kind; further developments are proposed to introduce an upload data feature, translate it into different languages and increase interactivity of the software. This article will present the main features and functionalities of HEAT and discuss its relevance and use for health inequality monitoring.

  10. The Application of NLTK Toolkit Based on Python in Corpus Research%基于 Python 自然语言处理工具包在语料库研究中的运用

    Institute of Scientific and Technical Information of China (English)

    刘旭

    2015-01-01

    According to the current domestic corpus based study,AntConc and PowerGREP are the main research tool.Few studies were done using the Python language NLTK packet for data processing and a-nalysis.It can not provide support to the research methods due to the design defect of the software.The Python language NLTK handling package was used in the study so that the data have uniform standards, avoiding the conversion of various types of word processing workshop trouble.It also makes up for the weakness of the range tool such as syntactic analysis,graphic,regular expression search etc.In this pa-per,it was briefly introduced that the application of NLTK processing package based on Python in corpus research.Then it takes the novel Emma written by Austen in Gutenberg corpus as an example to explain how to use the natural language processing to process the data.%国内当前以语料库为基础的研究,在研究工具方面,多以 AntConc、PowerGREP 为主,使用 Python 语言 NLTK 包进行数据处理分析的研究较少,限于软件自身设计,不能灵活地对研究方法提供支持。在研究中使用 Python 语言的 NLTK 处理包,使数据有了统一标准,避免了各类文字处理转换的麻烦,同时也弥补了Range 等工具在句法分析、图形绘制、正则表达式检索等方面的缺憾。针对语料库研究的中文本分词、词形归并、文本检索统计等主要环节,简要介绍 Python 语言的 NLTK 自然语言处理包在语料库研究中的运用,并以古腾堡语料库中的简·奥斯丁小说《艾玛》为例,说明如何运用该自然语言处理包对语料进行加工处理。

  11. EPC: A Provably Secure Permutation Based Compression Function

    DEFF Research Database (Denmark)

    Bagheri, Nasour; Gauravaram, Praveen; Naderi, Majid;

    2010-01-01

    The security of permutation-based hash functions in the ideal permutation model has been studied when the input-length of compression function is larger than the input-length of the permutation function. In this paper, we consider permutation based compression functions that have input lengths sh...

  12. Partnership‐Driven Resources to Improve and Enhance Research (PRIMER): A Survey of Community‐Engaged Researchers and Creation of an Online Toolkit

    Science.gov (United States)

    Dolor, Rowena J.; Greene, Sarah M.; Thompson, Ella; Baldwin, Laura‐Mae; Neale, Anne Victoria

    2011-01-01

    Abstract Objective: This project aimed to develop an open‐access website providing adaptable resources to facilitate best practices for multisite research from initiation to closeout. Methods: A web‐based assessment was sent to the leadership of the Clinical and Translational Science Award (CTSA) Community Engagement Key Functions Committee (n= 38) and the CTSA‐affiliated Primary Care Practice‐based Research Networks (PBRN, n= 55). Respondents rated the benefits and barriers of multisite research, the utility of available resources, and indicated their level of interest in unavailable resources. Then, existing research resources were evaluated for relevance to multisite research, adaptability to other projects, and source credibility. Results: Fifty‐five (59%) of invited participants completed the survey. Top perceived benefits of multisite research were the ability to conduct community‐relevant research through academic–community partnerships (34%) and accelerating translation of research into practice (31%). Top perceived barriers were lack of research infrastructure to support PBRNs and community partners (31%) and inadequate funding to support multisite collaborations (26%). Over 200 resources were evaluated, of which 120 unique resources were included in the website. Conclusion: The PRIMER Research Toolkit (http://www.researchtoolkit.org) provides an array of peer‐reviewed resources to facilitate translational research for the conduct of multisite studies within PBRNs and community‐based organizations. Clin Trans Sci 2011; Volume 4: 259–265 PMID:21884512

  13. Affine Riesz bases and the dual function

    Science.gov (United States)

    Terekhin, P. A.

    2016-09-01

    This paper is concerned with systems of functions on the unit interval which are generated by dyadic dilations and integer translations of a given function. Similar systems have a wide range of applications in the theory of wavelets, in nonlinear, and in particular, in greedy approximations, in the representation of functions by series, in problems in numerical analysis, and so on. Conditions, and in some particular cases, criteria for the generating function are given for the system to be Besselian, to form a Riesz basis or to be an orthonormal system, and separately, to be complete. For this purpose, the concept of the dual function of the generating function of a system is introduced and studied. Some of the conditions given below are easy to verify in practice, as is demonstrated by examples. Bibliography: 25 titles.

  14. A Grassroots Remote Sensing Toolkit Using Live Coding, Smartphones, Kites and Lightweight Drones

    Science.gov (United States)

    Anderson, K.; Griffiths, D.; DeBell, L.; Hancock, S.; Duffy, J. P.; Shutler, J. D.; Reinhardt, W. J.; Griffiths, A.

    2016-01-01

    This manuscript describes the development of an android-based smartphone application for capturing aerial photographs and spatial metadata automatically, for use in grassroots mapping applications. The aim of the project was to exploit the plethora of on-board sensors within modern smartphones (accelerometer, GPS, compass, camera) to generate ready-to-use spatial data from lightweight aerial platforms such as drones or kites. A visual coding ‘scheme blocks’ framework was used to build the application (‘app’), so that users could customise their own data capture tools in the field. The paper reports on the coding framework, then shows the results of test flights from kites and lightweight drones and finally shows how open-source geospatial toolkits were used to generate geographical information system (GIS)-ready GeoTIFF images from the metadata stored by the app. Two Android smartphones were used in testing–a high specification OnePlus One handset and a lower cost Acer Liquid Z3 handset, to test the operational limits of the app on phones with different sensor sets. We demonstrate that best results were obtained when the phone was attached to a stable single line kite or to a gliding drone. Results show that engine or motor vibrations from powered aircraft required dampening to ensure capture of high quality images. We demonstrate how the products generated from the open-source processing workflow are easily used in GIS. The app can be downloaded freely from the Google store by searching for ‘UAV toolkit’ (UAV toolkit 2016), and used wherever an Android smartphone and aerial platform are available to deliver rapid spatial data (e.g. in supporting decision-making in humanitarian disaster-relief zones, in teaching or for grassroots remote sensing and democratic mapping). PMID:27144310

  15. FIELD GROUND TRUTHING DATA COLLECTOR – A MOBILE TOOLKIT FOR IMAGE ANALYSIS AND PROCESSING

    Directory of Open Access Journals (Sweden)

    X. Meng

    2012-07-01

    Full Text Available Field Ground Truthing Data Collector is one of the four key components of the NASA funded ICCaRS project, being developed in Southeast Michigan. The ICCaRS ground truthing toolkit entertains comprehensive functions: 1 Field functions, including determining locations through GPS, gathering and geo-referencing visual data, laying out ground control points for AEROKAT flights, measuring the flight distance and height, and entering observations of land cover (and use and health conditions of ecosystems and environments in the vicinity of the flight field; 2 Server synchronization functions, such as, downloading study-area maps, aerial photos and satellite images, uploading and synchronizing field-collected data with the distributed databases, calling the geospatial web services on the server side to conduct spatial querying, image analysis and processing, and receiving the processed results in field for near-real-time validation; and 3 Social network communication functions for direct technical assistance and pedagogical support, e.g., having video-conference calls in field with the supporting educators, scientists, and technologists, participating in Webinars, or engaging discussions with other-learning portals. This customized software package is being built on Apple iPhone/iPad and Google Maps/Earth. The technical infrastructures, data models, coupling methods between distributed geospatial data processing and field data collector tools, remote communication interfaces, coding schema, and functional flow charts will be illustrated and explained at the presentation. A pilot case study will be also demonstrated.

  16. Function and budget based system architecting

    NARCIS (Netherlands)

    Bonnema, Maarten; Horvath, I.; Duhovnik, J.

    2006-01-01

    The paper presents the principles of a method that integrates functional modelling and requirements modelling to support the system architect in creating and comparing system architectures. Integration is achieved by a coupling matrix that connects functions to key drivers or requirements. Using the

  17. Functional Behavioral Assessment: A School Based Model.

    Science.gov (United States)

    Asmus, Jennifer M.; Vollmer, Timothy R.; Borrero, John C.

    2002-01-01

    This article begins by discussing requirements for functional behavioral assessment under the Individuals with Disabilities Education Act and then describes a comprehensive model for the application of behavior analysis in the schools. The model includes descriptive assessment, functional analysis, and intervention and involves the participation…

  18. Implementing a user-driven online quality improvement toolkit for cancer care.

    Science.gov (United States)

    Luck, Jeff; York, Laura S; Bowman, Candice; Gale, Randall C; Smith, Nina; Asch, Steven M

    2015-05-01

    Peer-to-peer collaboration within integrated health systems requires a mechanism for sharing quality improvement lessons. The Veterans Health Administration (VA) developed online compendia of tools linked to specific cancer quality indicators. We evaluated awareness and use of the toolkits, variation across facilities, impact of social marketing, and factors influencing toolkit use. A diffusion of innovations conceptual framework guided the collection of user activity data from the Toolkit Series SharePoint site and an online survey of potential Lung Cancer Care Toolkit users. The VA Toolkit Series site had 5,088 unique visitors in its first 22 months; 5% of users accounted for 40% of page views. Social marketing communications were correlated with site usage. Of survey respondents (n = 355), 54% had visited the site, of whom 24% downloaded at least one tool. Respondents' awareness of the lung cancer quality performance of their facility, and facility participation in quality improvement collaboratives, were positively associated with Toolkit Series site use. Facility-level lung cancer tool implementation varied widely across tool types. The VA Toolkit Series achieved widespread use and a high degree of user engagement, although use varied widely across facilities. The most active users were aware of and active in cancer care quality improvement. Toolkit use seemed to be reinforced by other quality improvement activities. A combination of user-driven tool creation and centralized toolkit development seemed to be effective for leveraging health information technology to spread disease-specific quality improvement tools within an integrated health care system. Copyright © 2015 by American Society of Clinical Oncology.

  19. Gate-based decomposition of index generation functions

    Science.gov (United States)

    Łuba, Tadeusz; Borowik, Grzegorz; Jankowski, Cezary

    2016-09-01

    Index Generation Functions may be useful in distribution of IP addresses, virus scanning, or undesired data detection. Traditional approach leads to universal cells based decomposition. In this paper an original method is proposed. The proposed multilevel logic synthesis method based on functional decomposition uses gates instead of cells. Furthermore, it preserves advantages of functional decomposition and is well suited for ROM-based synthesis of Index Generation Functions.

  20. LEVEL SET METHODS BASED ON DISTANCE FUNCTION

    Institute of Scientific and Technical Information of China (English)

    王德军; 唐云; 于洪川; 唐泽圣

    2003-01-01

    Some basic problems on the level set methods were discussed, such as the method used to preserve the distance function, the existence and uniqueness of solution for the level set equations. The main contribution is to prove that in a neighborhood of the initial zero level set, the level set equations with the restriction of the distance function have a unique solution, which must be the signed distance function with respect to the evolving surface. Some skillful approaches were used: Noticing that any solution for the original equation was a distance function, the original level set equations were transformed into a simpler alternative form. Moreover, since the new system was not a classical one, the system was transforned into an ordinary one, for which the implicit function method was adopted.

  1. Model-based Kinematics Generation for Modular Mechatronic Toolkits

    DEFF Research Database (Denmark)

    Bordignon, M.; Schultz, U. P.; Stoy, K.

    2011-01-01

    Modular robots are mechatronic devices that enable the construction of highly versatile and flexible robotic systems whose mechanical structure can be dynamically modified. The key feature that enables this dynamic modification is the capability of the individual modules to connect to each other...... in multiple ways and thus generate a number of different mechanical systems, in contrast with the monolithic, fixed structure of conventional robots. The mechatronic flexibility, however, complicates the development of models and programming abstractions for modular robots, since manually describing...... the Modular Mechatronics Modelling Language (M3L). M3L is a domain-specific language, which can model the kinematic structure of individual robot modules and declaratively describe their possible interconnections, rather than requiring the user to enumerate them in their entirety. From this description, the M...

  2. Hash function based secret sharing scheme designs

    CERN Document Server

    Chum, Chi Sing

    2011-01-01

    Secret sharing schemes create an effective method to safeguard a secret by dividing it among several participants. By using hash functions and the herding hashes technique, we first set up a (t+1, n) threshold scheme which is perfect and ideal, and then extend it to schemes for any general access structure. The schemes can be further set up as proactive or verifiable if necessary. The setup and recovery of the secret is efficient due to the fast calculation of the hash function. The proposed scheme is flexible because of the use of existing hash functions.

  3. Pathway-Based Functional Analysis of Metagenomes

    Science.gov (United States)

    Bercovici, Sivan; Sharon, Itai; Pinter, Ron Y.; Shlomi, Tomer

    Metagenomic data enables the study of microbes and viruses through their DNA as retrieved directly from the environment in which they live. Functional analysis of metagenomes explores the abundance of gene families, pathways, and systems, rather than their taxonomy. Through such analysis researchers are able to identify those functional capabilities most important to organisms in the examined environment. Recently, a statistical framework for the functional analysis of metagenomes was described that focuses on gene families. Here we describe two pathway level computational models for functional analysis that take into account important, yet unaddressed issues such as pathway size, gene length and overlap in gene content among pathways. We test our models over carefully designed simulated data and propose novel approaches for performance evaluation. Our models significantly improve over current approach with respect to pathway ranking and the computations of relative abundance of pathways in environments.

  4. Catechol-based biomimetic functional materials

    OpenAIRE

    Sedó, Josep; Saiz-Poseu, Javier; Busqué, Félix; Ruiz Molina, Daniel

    2013-01-01

    Catechols are found in nature taking part in a remarkably broad scope of biochemical processes and functions. Though not exclusively, such versatility may be traced back to several properties uniquely found together in the o-dihydroxyaryl chemical function; namely, its ability to establish reversible equilibria at moderate redox potentials and pHs and to irreversibly cross-link through complex oxidation mechanisms; its excellent chelating properties, greatly exemplified by, but by no means ex...

  5. A toolkit for MSDs prevention--WHO and IEA context.

    Science.gov (United States)

    Caple, David C

    2012-01-01

    Many simple MSD risk management tools have been developed by ergonomists for use by workers and employers with little or no training to undertake injury prevention programs in their workplace. However, currently there is no "toolkit" which places such tools within an holistic, participative ergonomics framework and provides guidance on how best to use individual tools. It is proposed that such an holistic approach should entail initial analysis and evaluation of underlying systems of work and related health and performance indicators, prior to focusing in assessment of MSD risks stemming from particular hazards. Depending on the context, more narrowly focused tools might then be selected to assess risk associated with jobs or tasks identified as problematic. This approach ensures that biomechanical risk factors are considered within a broad context of organizational and psychosocial risk factors. This is consistent with current research evidence on work- related causes of MSDs.

  6. The interactive learning toolkit: technology and the classroom

    Science.gov (United States)

    Lukoff, Brian; Tucker, Laura

    2011-04-01

    Peer Instruction (PI) and Just-in-Time-Teaching (JiTT) have been shown to increase both students' conceptual understanding and problem-solving skills. However, the time investment for the instructor to prepare appropriate conceptual questions and manage student JiTT responses is one of the main implementation hurdles. To overcome this we have developed the Interactive Learning Toolkit (ILT), a course management system specifically designed to support PI and JiTT. We are working to integrate the ILT with a fully interactive classroom system where students can use their laptops and smartphones to respond to ConcepTests in class. The goal is to use technology to engage students in conceptual thinking both in and out of the classroom.

  7. HemI: a toolkit for illustrating heatmaps.

    Directory of Open Access Journals (Sweden)

    Wankun Deng

    Full Text Available Recent high-throughput techniques have generated a flood of biological data in all aspects. The transformation and visualization of multi-dimensional and numerical gene or protein expression data in a single heatmap can provide a concise but comprehensive presentation of molecular dynamics under different conditions. In this work, we developed an easy-to-use tool named HemI (Heat map Illustrator, which can visualize either gene or protein expression data in heatmaps. Additionally, the heatmaps can be recolored, rescaled or rotated in a customized manner. In addition, HemI provides multiple clustering strategies for analyzing the data. Publication-quality figures can be exported directly. We propose that HemI can be a useful toolkit for conveniently visualizing and manipulating heatmaps. The stand-alone packages of HemI were implemented in Java and can be accessed at http://hemi.biocuckoo.org/down.php.

  8. HemI: a toolkit for illustrating heatmaps.

    Science.gov (United States)

    Deng, Wankun; Wang, Yongbo; Liu, Zexian; Cheng, Han; Xue, Yu

    2014-01-01

    Recent high-throughput techniques have generated a flood of biological data in all aspects. The transformation and visualization of multi-dimensional and numerical gene or protein expression data in a single heatmap can provide a concise but comprehensive presentation of molecular dynamics under different conditions. In this work, we developed an easy-to-use tool named HemI (Heat map Illustrator), which can visualize either gene or protein expression data in heatmaps. Additionally, the heatmaps can be recolored, rescaled or rotated in a customized manner. In addition, HemI provides multiple clustering strategies for analyzing the data. Publication-quality figures can be exported directly. We propose that HemI can be a useful toolkit for conveniently visualizing and manipulating heatmaps. The stand-alone packages of HemI were implemented in Java and can be accessed at http://hemi.biocuckoo.org/down.php.

  9. PHISICS TOOLKIT: MULTI-REACTOR TRANSMUTATION ANALYSIS UTILITY - MRTAU

    Energy Technology Data Exchange (ETDEWEB)

    Andrea Alfonsi; Cristian Rabiti; Aaron S. Epiney; Yaqi Wang; Joshua Cogliati

    2012-04-01

    The principal idea of this paper is to present the new capabilities available in the PHISICS toolkit, connected with the implementation of the depletion code MRTAU, a generic depletion/ decay/burn-up code developed at the Idaho National Laboratory. It is programmed in a modular structure and modern FORTRAN 95/2003. The code tracks the time evolution of the isotopic concentration of a given material accounting for nuclear reaction happening in presence of neutron flux and also due to natural decay. MRTAU has two different methods to perform the depletion calculation, in order to let the user choose the best one respect his needs. Both the methodologies and some significant results are reported in this paper.

  10. An expanded nuclear phylogenomic PCR toolkit for Sapindales1

    Science.gov (United States)

    Collins, Elizabeth S.; Gostel, Morgan R.; Weeks, Andrea

    2016-01-01

    Premise of the study: We tested PCR amplification of 91 low-copy nuclear gene loci in taxa from Sapindales using primers developed for Bursera simaruba (Burseraceae). Methods and Results: Cross-amplification of these markers among 10 taxa tested was related to their phylogenetic distance from B. simaruba. On average, each Sapindalean taxon yielded product for 53 gene regions (range: 16–90). Arabidopsis thaliana (Brassicales), by contrast, yielded product for two. Single representatives of Anacardiaceae and Rutacaeae yielded 34 and 26 products, respectively. Twenty-six primer pairs worked for all Burseraceae species tested if highly divergent Aucoumea klaineana is excluded, and eight of these amplified product in every Sapindalean taxon. Conclusions: Our study demonstrates that customized primers for Bursera can amplify product in a range of Sapindalean taxa. This collection of primer pairs, therefore, is a valuable addition to the toolkit for nuclear phylogenomic analyses of Sapindales and warrants further investigation. PMID:28101434

  11. Integrating surgical robots into the next medical toolkit.

    Science.gov (United States)

    Lai, Fuji; Entin, Eileen

    2006-01-01

    Surgical robots hold much promise for revolutionizing the field of surgery and improving surgical care. However, despite the potential advantages they offer, there are multiple barriers to adoption and integration into practice that may prevent these systems from realizing their full potential benefit. This study elucidated some of the most salient considerations that need to be addressed for integration of new technologies such as robotic systems into the operating room of the future as it evolves into a complex system of systems. We conducted in-depth interviews with operating room team members and other stakeholders to identify potential barriers in areas of workflow, teamwork, training, clinical acceptance, and human-system interaction. The findings of this study will inform an approach for the design and integration of robotics and related computer-assisted technologies into the next medical toolkit for "computer-enhanced surgery" to improve patient safety and healthcare quality.

  12. Globus Toolkit Support for Distributed Data—Intensive Science

    Institute of Scientific and Technical Information of China (English)

    W.Alcock; A.Chervenak; 等

    2001-01-01

    In high-energy physics,terabyte and soon petabyte-scale data collections are emerging as critical community resources.A new class of "Data Grid" infrastructure is required to support distributed access to and analysis of these datasets by potentially thousands of users.Data Grid technology is being deployed in numerous experiments through collaborationssuch as the EU DataGrid,the Grid Physics Network,and the Particel Physics Data Grid[1],The Globus Toolkit is a widely used set of services designed to support the creation of these Grid infrastrunctures and applications,In this paper we survey the Globus technologies that will play a major role in the development and deployment for these Grids.

  13. Applying a toolkit for dissemination and analysis of near real-time data through the World Wide Web: integration of the Antelope Real Time System, ROADNet, and PHP

    Science.gov (United States)

    Newman, R. L.; Lindquist, K. G.; Hansen, T. S.; Vernon, F. L.; Eakins, J.; Foley, S.; Orcutt, J.

    2005-12-01

    The ROADNet project has enabled the acquisition and storage of diverse data streams through seamless integration of the Antelope Real Time System (ARTS) with (for example) ecological, seismological and geodetic instrumentation. The robust system architecture allows researchers to simply network data loggers with relational databases; however, the ability to disseminate these data to policy makers, scientists and the general public has (until recently) been provided on an 'as needed' basis. The recent development of a Datascope interface to the popular open source scripting language PHP has provided an avenue for presenting near real time data (such as integers, images and movies) from within the ARTS framework easily on the World Wide Web. The interface also indirectly provided the means to transform data types into various formats using the extensive function libraries that accompany a PHP installation (such as image creation and manipulation, data encryption for sensitive information, and XML creation for structured document interchange through the World Wide Web). Using a combination of Datascope and PHP library functions, an extensible tool-kit is being developed to allow data managers to easily present their products on the World Wide Web. The tool-kit has been modeled after the pre-existing ARTS architecture to simplify the installation, development and ease-of-use for both the seasoned researcher and the casual user. The methodology and results of building the applications that comprise the tool-kit are the focus of this presentation, including procedural vs. object oriented design, incorporation of the tool-kit into the existing contributed software libraries, and case-studies of researchers who are employing the tools to present their data. http://anf.ucsd.edu

  14. When paradigms collide at the road rail interface: evaluation of a sociotechnical systems theory design toolkit for cognitive work analysis.

    Science.gov (United States)

    Read, Gemma J M; Salmon, Paul M; Lenné, Michael G

    2016-09-01

    The Cognitive Work Analysis Design Toolkit (CWA-DT) is a recently developed approach that provides guidance and tools to assist in applying the outputs of CWA to design processes to incorporate the values and principles of sociotechnical systems theory. In this paper, the CWA-DT is evaluated based on an application to improve safety at rail level crossings. The evaluation considered the extent to which the CWA-DT met pre-defined methodological criteria and aligned with sociotechnical values and principles. Both process and outcome measures were taken based on the ratings of workshop participants and human factors experts. Overall, workshop participants were positive about the process and indicated that it met the methodological criteria and sociotechnical values. However, expert ratings suggested that the CWA-DT achieved only limited success in producing RLX designs that fully aligned with the sociotechnical approach. Discussion about the appropriateness of the sociotechnical approach in a public safety context is provided. Practitioner Summary: Human factors and ergonomics practitioners need evidence of the effectiveness of methods. A design toolkit for cognitive work analysis, incorporating values and principles from sociotechnical systems theory, was applied to create innovative designs for rail level crossings. Evaluation results based on the application are provided and discussed.

  15. Agent Based Processing of Global Evaluation Function

    CERN Document Server

    Hossain, M Shahriar; Joarder, Md Mahbubul Alam

    2011-01-01

    Load balancing across a networked environment is a monotonous job. Moreover, if the job to be distributed is a constraint satisfying one, the distribution of load demands core intelligence. This paper proposes parallel processing through Global Evaluation Function by means of randomly initialized agents for solving Constraint Satisfaction Problems. A potential issue about the number of agents in a machine under the invocation of distribution is discussed here for securing the maximum benefit from Global Evaluation and parallel processing. The proposed system is compared with typical solution that shows an exclusive outcome supporting the nobility of parallel implementation of Global Evaluation Function with certain number of agents in each invoked machine.

  16. A transposon toolkit for gene transfer and mutagenesis in protozoan parasites.

    Science.gov (United States)

    Damasceno, Jeziel D; Beverley, Stephen M; Tosi, Luiz R O

    2010-03-01

    Protozoan parasites affect millions of people around the world. Treatment and control of these diseases are complicated partly due to the intricate biology of these organisms. The interactions of species of Plasmodium, Leishmania and trypanosomes with their hosts are mediated by an unusual control of gene expression that is not fully understood. The availability of the genome sequence of these protozoa sets the stage for using more comprehensive, genome-wide strategies to study gene function. Transposons are effective tools for the systematic introduction of genetic alterations and different transposition systems have been adapted to study gene function in these human pathogens. A mariner transposon toolkit for use in vivo or in vitro in Leishmania parasites has been developed and can be used in a variety of applications. These modified mariner elements not only permit the inactivation of genes, but also mediate the rescue of translational gene fusions, bringing a major contribution to the investigation of Leishmania gene function. The piggyBac and Tn5 transposons have also been shown to mobilize across Plasmodium spp. genomes circumventing the current limitations in the genetic manipulation of these organisms.

  17. Field tests of a participatory ergonomics toolkit for Total Worker Health.

    Science.gov (United States)

    Nobrega, Suzanne; Kernan, Laura; Plaku-Alakbarova, Bora; Robertson, Michelle; Warren, Nicholas; Henning, Robert

    2017-04-01

    Growing interest in Total Worker Health(®) (TWH) programs to advance worker safety, health and well-being motivated development of a toolkit to guide their implementation. Iterative design of a program toolkit occurred in which participatory ergonomics (PE) served as the primary basis to plan integrated TWH interventions in four diverse organizations. The toolkit provided start-up guides for committee formation and training, and a structured PE process for generating integrated TWH interventions. Process data from program facilitators and participants throughout program implementation were used for iterative toolkit design. Program success depended on organizational commitment to regular design team meetings with a trained facilitator, the availability of subject matter experts on ergonomics and health to support the design process, and retraining whenever committee turnover occurred. A two committee structure (employee Design Team, management Steering Committee) provided advantages over a single, multilevel committee structure, and enhanced the planning, communication, and teamwork skills of participants.

  18. Pyradi: an open-source toolkit for infrared calculation and data processing

    CSIR Research Space (South Africa)

    Willers, CJ

    2012-09-01

    Full Text Available Electro-optical system design, data analysis and modelling involve a significant amount of calculation and processing. Many of these calculations are of a repetitive and general nature, suitable for including in a generic toolkit. The availability...

  19. Mocapy++ - a toolkit for inference and learning in dynamic Bayesian networks

    DEFF Research Database (Denmark)

    Paluszewski, Martin; Hamelryck, Thomas Wim

    2010-01-01

    Background Mocapy++ is a toolkit for parameter learning and inference in dynamic Bayesian networks (DBNs). It supports a wide range of DBN architectures and probability distributions, including distributions from directional statistics (the statistics of angles, directions and orientations...

  20. ACES Model Composition and Development Toolkit to Support NGATS Concepts Project

    Data.gov (United States)

    National Aeronautics and Space Administration — The key innovation proposed in this effort is the development of a model composition toolkit that will enable NASA Airspace Concept Evaluation System (ACES) users to...

  1. Energy Conservation Behaviour Toolkit. Incentive Meachnisms for Effective Decrease of Energy Consumption at the Workplace

    NARCIS (Netherlands)

    Kalz, Marco; Börner, Dirk; Specht, Marcus

    2012-01-01

    Kalz, M., Börner, D., & Specht, M. (2012, 18 September). Energy Conservation Behaviour Toolkit. Incentive Mechanisms for Effective Decrease of Energy Consumption at the Workplace. Presentation at the 'Tussenbijeenkomst SURFnet Innovatieregeling Duurzaamheid & ICT', Utrecht, The Netherlands.

  2. A Teacher Tablet Toolkit to meet the challenges posed by 21st ...

    African Journals Online (AJOL)

    Adele @

    2015-11-25

    Nov 25, 2015 ... participating teachers with a toolkit consisting of technology hardware, pragmatic pedagogical and technology .... new concepts and new processes related to teaching ..... space to experiment and multiple opportunities to.

  3. A Toolkit For CryoSat Investigations By The ESRIN EOP-SER Altimetry Team

    Science.gov (United States)

    Dinardo, Salvatore; Bruno, Lucas; Benveniste, Jerome

    2013-12-01

    The scope of this work is to feature the new tool for the exploitation of the CryoSat data, designed and developed entirely by the Altimetry Team at ESRIN EOP-SER (Earth Observation - Exploitation, Research and Development). The tool framework is composed of two separate components: the first one handles the data collection and management, the second one is the processing toolkit. The CryoSat FBR (Full Bit Rate) data is downlinked uncompressed from the satellite, containing un-averaged individual echoes. This data is made available in the Kiruna CalVal server in a 10 day rolling archive. Daily at ESRIN all the CryoSat FBR data, in SAR and SARin Mode, are downloaded (around 30 Gigabytes) catalogued and archived in local ESRIN EOP-SER workstations. As of March 2013, the total amount of FBR data is over 9 Terabytes, with CryoSat acquisition dates spanning January 2011 to February 2013 (with some gaps). This archive was built by merging partial datasets available at ESTEC and NOAA, that have been kindly made available for EOP-SER team. The on-demand access to this low level data is restricted to expert users with validated ESA P.I. credentials. Currently the main users of the archiving functionality are the team members of the Project CP4O (STSE- CryoSat Plus for Ocean), CNES and NOAA. The second component of the service is the processing toolkit. On the EOP-SER workstations there is internally and independently developed software that is able to process the FBR data in SAR/SARin mode to generate multi-looked echoes (Level 1B) and subsequently able to re-track them in SAR and SARin mode (Level 2) over open ocean, exploiting the SAMOSA model and other internally developed models. The processing segment is used for research & development scopes, supporting the development contracts awarded confronting the deliverables to ESA, on site demonstrations/training to selected users, cross- comparison against third part products (CLS/CNES CPP Products for instance), preparation

  4. BlockyTalky: A Physical and Distributed Computer Music Toolkit for Kids

    OpenAIRE

    Shapiro, R. Benjamin; Kelly, Annie; Ahrens, Matthew; Fiebrink, Rebecca

    2016-01-01

    NIME research realizes a vision of performance by means of computational expression, linking body and space to sound and imagery through eclectic forms of sensing and interaction. This vision could dramatically impact computer science education, simultaneously modernizing the field and drawing in diverse new participants. We describe our work creating a NIME-inspired computer music toolkit for kids called BlockyTalky; the toolkit enables users to create networks of sensing devices and synthes...

  5. Wind Integration National Dataset (WIND) Toolkit; NREL (National Renewable Energy Laboratory)

    Energy Technology Data Exchange (ETDEWEB)

    Draxl, Caroline; Hodge, Bri-Mathias

    2015-07-14

    A webinar about the Wind Integration National Dataset (WIND) Toolkit was presented by Bri-Mathias Hodge and Caroline Draxl on July 14, 2015. It was hosted by the Southern Alliance for Clean Energy. The toolkit is a grid integration data set that contains meteorological and power data at a 5-minute resolution across the continental United States for 7 years and hourly power forecasts.

  6. Development and Pilot Test of the RAND Suicide Prevention Program Evaluation Toolkit

    Science.gov (United States)

    2013-01-01

    chaplains, and front-desk attendants, at installation gyms to identify individuals at increased risk for suicide and to actively refer those in...articles to supplement existing information in the toolkit chap- ters. Because information in these articles varied widely, we could not use a standard...improved by supplementing the toolkit with training and technical assistance, which could be provided in conjunction with dissemination efforts. This

  7. GO-based Functional Dissimilarity of Gene Sets

    Directory of Open Access Journals (Sweden)

    Aguilar-Ruiz Jesús S

    2011-09-01

    Full Text Available Abstract Background The Gene Ontology (GO provides a controlled vocabulary for describing the functions of genes and can be used to evaluate the functional coherence of gene sets. Many functional coherence measures consider each pair of gene functions in a set and produce an output based on all pairwise distances. A single gene can encode multiple proteins that may differ in function. For each functionality, other proteins that exhibit the same activity may also participate. Therefore, an identification of the most common function for all of the genes involved in a biological process is important in evaluating the functional similarity of groups of genes and a quantification of functional coherence can helps to clarify the role of a group of genes working together. Results To implement this approach to functional assessment, we present GFD (GO-based Functional Dissimilarity, a novel dissimilarity measure for evaluating groups of genes based on the most relevant functions of the whole set. The measure assigns a numerical value to the gene set for each of the three GO sub-ontologies. Conclusions Results show that GFD performs robustly when applied to gene set of known functionality (extracted from KEGG. It performs particularly well on randomly generated gene sets. An ROC analysis reveals that the performance of GFD in evaluating the functional dissimilarity of gene sets is very satisfactory. A comparative analysis against other functional measures, such as GS2 and those presented by Resnik and Wang, also demonstrates the robustness of GFD.

  8. Model-based security engineering for the internet of things

    OpenAIRE

    NEISSE RICARDO; STERI GARY; NAI FOVINO Igor; Baldini, Gianmarco; VAN HOESEL Lodewijk

    2015-01-01

    We propose in this chapter a Model-based Security Toolkit (SecKit) and methodology to address the control and protection of user data in the deployment of the Internet of Things (IoT). This toolkit takes a more general approach for security engineering including risk analysis, establishment of aspect-specific trust relationships, and enforceable security policies. We describe the integrated metamodels used in the toolkit and the accompanying security engineering methodology for IoT systems...

  9. The nursing human resource planning best practice toolkit: creating a best practice resource for nursing managers.

    Science.gov (United States)

    Vincent, Leslie; Beduz, Mary Agnes

    2010-05-01

    Evidence of acute nursing shortages in urban hospitals has been surfacing since 2000. Further, new graduate nurses account for more than 50% of total nurse turnover in some hospitals and between 35% and 60% of new graduates change workplace during the first year. Critical to organizational success, first line nurse managers must have the knowledge and skills to ensure the accurate projection of nursing resource requirements and to develop proactive recruitment and retention programs that are effective, promote positive nursing socialization, and provide early exposure to the clinical setting. The Nursing Human Resource Planning Best Practice Toolkit project supported the creation of a network of teaching and community hospitals to develop a best practice toolkit in nursing human resource planning targeted at first line nursing managers. The toolkit includes the development of a framework including the conceptual building blocks of planning tools, manager interventions, retention and recruitment and professional practice models. The development of the toolkit involved conducting a review of the literature for best practices in nursing human resource planning, using a mixed method approach to data collection including a survey and extensive interviews of managers and completing a comprehensive scan of human resource practices in the participating organizations. This paper will provide an overview of the process used to develop the toolkit, a description of the toolkit contents and a reflection on the outcomes of the project.

  10. Functional group based Ligand binding affinity scoring function at atomic environmental level

    OpenAIRE

    Varadwaj, Pritish Kumar; Lahiri, Tapobrata

    2009-01-01

    Use of knowledge based scoring function (KBSF) for virtual screening and molecular docking has become an established method for drug discovery. Lack of a precise and reliable free energy function that describes several interactions including water-mediated atomic interaction between amino-acid residues and ligand makes distance based statistical measure as the only alternative. Till now all the distance based scoring functions in KBSF arena use atom singularity concept, which neglects the env...

  11. Trace2PS and FSA2PS: two software toolkits for converting trace and fsa files to PostScript format

    Directory of Open Access Journals (Sweden)

    Werber Martin

    2009-07-01

    Full Text Available Abstract Background Due to the advanced techniques in sequencing and fragment analysis, DNA sequencers and analyzers produce vast amounts of data within short time. To administrate the large data volume conveniently, efficient data management systems are used in order to process and to store sequencers' or analyzers' data outcome. The inclusion of graphical reports in such systems is necessary to achieve a comprehensive view of the integrated data. However, the resulting data of sequencing and fragment analysis runs are stored in a proprietary format, the so-called trace or fsa format, which is only readable by programs provided by the instrument's vendor operating on the machine itself or by commercial tools designed for editing the respective data. To allow for a quick conversion of the proprietary data format into a commonly used one, toolkits are required that reach this aim and can be easily integrated into workflow systems. Results We have developed the software toolkits Trace2PS and Fsa2PS which allow to convert sequence and fragment analysis raw data files to PostScript images, respectively. The toolkits are implemented as Perl modules that can be used as standalone command line applications in conjunction with a script-based analysis pipeline, or integrated in software applications for displaying the data content of trace and fsa files. The converter modules support the commonly used file formats for storage of sequencing (ABI and SCF and fragment analysis data (FSA. Conclusion The software toolkits provide useful applications to convert sequencing and fragment analysis files from a proprietary into a more common, human-readable format. Trace2PS and FSA2PS are useful and capable in data management workflow systems like SAMS, or laboratory information systems that are used for displaying trace and fragment analysis results via web-based tools over an intranet or internet connection to users that can view their results directly on the

  12. Conceptual modelling approach of mechanical products based on functional surface

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    A modelling framework based on functional surface is presented to support conceptual design of mechanical products. The framework organizes product information in an abstract and multilevel manner. It consists of two mapping processes: function decomposition process and form reconstitution process. The steady mapping relationship from function to form (function-functional surface-form) is realized by taking functional surface as the middle layer. It farthest reduces the possibilities of combinatorial explosion that can occur during function decomposition and form reconstitution. Finally, CAD tools are developed and an auto-bender machine is applied to demonstrate the proposed approach.

  13. Functional properties of chitosan-based films.

    Science.gov (United States)

    Leceta, I; Guerrero, P; de la Caba, K

    2013-03-01

    Chitosan-based films plasticized with glycerol were prepared by casting with the aim to obtain environmentally friendly materials for packaging applications. Different contents of glycerol were incorporated into chitosan solutions to improve mechanical properties and all films obtained were flexible and transparent. It was observed that the transparency and good behaviour of the films against UV radiation were not affected by chitosan molecular weight or glycerol content. Moreover, chitosan-based films exhibited excellent barrier properties against water vapour and oxygen, even with the addition of glycerol. The effect of the plasticizer on the properties has been explained using Fourier transform infrared (FTIR) spectroscopic analysis. The changes observed in the intensity of the bands showed that glycerol interacts with chitosan, which could be confirmed by total soluble matter (TSM). Copyright © 2012 Elsevier Ltd. All rights reserved.

  14. Function approximation for learning control : a key sample based approach

    NARCIS (Netherlands)

    Kruif, de Bastiaan Johannes

    2004-01-01

    Two function approximators are introduced in this thesis for use in learning control. These function approximators identify a relation between input and output based on samples. Two different, but closely related function approximators are introduced: the key sample machine and the recursive key sam

  15. Function approximation for learning control : a key sample based approach

    OpenAIRE

    2004-01-01

    Two function approximators are introduced in this thesis for use in learning control. These function approximators identify a relation between input and output based on samples. Two different, but closely related function approximators are introduced: the key sample machine and the recursive key sample machine.

  16. The physiological and biochemical bases of functional brain imaging

    OpenAIRE

    2007-01-01

    Functional brain imaging is based on the display of computer-derived images of changes in physiological and/or biochemical functions altered by activation or depression of local functional activities in the brain. This article reviews the physiological and biochemical mechanisms involved.

  17. Averaging of random sets based on their distance functions

    NARCIS (Netherlands)

    Baddeley, A.J.; Molchanov, I.S.

    1995-01-01

    A new notion of expectation (or distance average) of random closed sets based on their distance function representation is introduced. A general concept of the distance function is exploited to define the expectation, which is the set whose distance function is closest to the expected distance funct

  18. The alveolate translation initiation factor 4E family reveals a custom toolkit for translational control in core dinoflagellates.

    Science.gov (United States)

    Jones, Grant D; Williams, Ernest P; Place, Allen R; Jagus, Rosemary; Bachvaroff, Tsvetan R

    2015-02-10

    Dinoflagellates are eukaryotes with unusual cell biology and appear to rely on translational rather than transcriptional control of gene expression. The eukaryotic translation initiation factor 4E (eIF4E) plays an important role in regulating gene expression because eIF4E binding to the mRNA cap is a control point for translation. eIF4E is part of an extended, eukaryote-specific family with different members having specific functions, based on studies of model organisms. Dinoflagellate eIF4E diversity could provide a mechanism for dinoflagellates to regulate gene expression in a post-transcriptional manner. Accordingly, eIF4E family members from eleven core dinoflagellate transcriptomes were surveyed to determine the diversity and phylogeny of the eIF4E family in dinoflagellates and related lineages including apicomplexans, ciliates and heterokonts. The survey uncovered eight to fifteen (on average eleven) different eIF4E family members in each core dinoflagellate species. The eIF4E family members from heterokonts and dinoflagellates segregated into three clades, suggesting at least three eIF4E cognates were present in their common ancestor. However, these three clades are distinct from the three previously described eIF4E classes, reflecting diverse approaches to a central eukaryotic function. Heterokonts contain four clades, ciliates two and apicomplexans only a single recognizable eIF4E clade. In the core dinoflagellates, the three clades were further divided into nine sub-clades based on the phylogenetic analysis and species representation. Six of the sub-clades included at least one member from all eleven core dinoflagellate species, suggesting duplication in their shared ancestor. Conservation within sub-clades varied, suggesting different selection pressures. Phylogenetic analysis of eIF4E in core dinoflagellates revealed complex layering of duplication and conservation when compared to other eukaryotes. Our results suggest that the diverse eIF4E family in

  19. Classroom Application of a Trial-Based Functional Analysis

    Science.gov (United States)

    Bloom, Sarah E.; Iwata, Brian A.; Fritz, Jennifer N.; Roscoe, Eileen M.; Carreau, Abbey B.

    2011-01-01

    We evaluated a trial-based approach to conducting functional analyses in classroom settings. Ten students referred for problem behavior were exposed to a series of assessment trials, which were interspersed among classroom activities throughout the day. Results of these trial-based functional analyses were compared to those of more traditional…

  20. Training Residential Staff to Conduct Trial-Based Functional Analyses

    Science.gov (United States)

    Lambert, Joseph M.; Bloom, Sarah E.; Kunnavatana, S. Shanun; Collins, Shawnee D.; Clay, Casey J.

    2013-01-01

    We taught 6 supervisors of a residential service provider for adults with developmental disabilities to train 9 house managers to conduct trial-based functional analyses. Effects of the training were evaluated with a nonconcurrent multiple baseline. Results suggest that house managers can be trained to conduct trial-based functional analyses with…

  1. A Multipurpose Toolkit to Enable Advanced Genome Engineering in Plants[OPEN

    Science.gov (United States)

    Gil-Humanes, Javier; Čegan, Radim; Kono, Thomas J.Y.; Konečná, Eva; Belanto, Joseph J.; Starker, Colby G.

    2017-01-01

    We report a comprehensive toolkit that enables targeted, specific modification of monocot and dicot genomes using a variety of genome engineering approaches. Our reagents, based on transcription activator-like effector nucleases (TALENs) and the clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 system, are systematized for fast, modular cloning and accommodate diverse regulatory sequences to drive reagent expression. Vectors are optimized to create either single or multiple gene knockouts and large chromosomal deletions. Moreover, integration of geminivirus-based vectors enables precise gene editing through homologous recombination. Regulation of transcription is also possible. A Web-based tool streamlines vector selection and construction. One advantage of our platform is the use of the Csy-type (CRISPR system yersinia) ribonuclease 4 (Csy4) and tRNA processing enzymes to simultaneously express multiple guide RNAs (gRNAs). For example, we demonstrate targeted deletions in up to six genes by expressing 12 gRNAs from a single transcript. Csy4 and tRNA expression systems are almost twice as effective in inducing mutations as gRNAs expressed from individual RNA polymerase III promoters. Mutagenesis can be further enhanced 2.5-fold by incorporating the Trex2 exonuclease. Finally, we demonstrate that Cas9 nickases induce gene targeting at frequencies comparable to native Cas9 when they are delivered on geminivirus replicons. The reagents have been successfully validated in tomato (Solanum lycopersicum), tobacco (Nicotiana tabacum), Medicago truncatula, wheat (Triticum aestivum), and barley (Hordeum vulgare). PMID:28522548

  2. GCIS地球化学工具软件的设计及其在地学中的应用%GCIS—A Geochemical Toolkit Design and its Geological Applications

    Institute of Scientific and Technical Information of China (English)

    马海勇; 董云鹏; 杨钊; 秦江峰

    2013-01-01

    GCIS地球化学工具软件是在管理信息系统(MIS)的设计思路的基础上,采用数据库原理和图形图像处理等计算机技术,选择Microsoft Visual Basic.Net作为编程语言,利用Microsoft Office Access作为后台数据库完成地球化学数据的存储,设计出的一套独立的地球化学数据管理及大地构造环境判别图解投图的地球化学工具软件.GCIS软件由多个不同的功能模块组成,可以有效地管理地球化学数据信息,并实现稀土元素配分图解、微量元素蛛网图、构造环境判别图解的生成与存储.在GCIS软件研发的同时,笔者将GCIS地球化学工具软件应用于滇东南师宗-弥勒断裂带西段建水地区地球化学特征及其成因研究.通过滇东南构造带地球化学特征研究的应用,进一步验证了GCIS软件的实用性.GCIS软件界面友好、操作简便,是地学研究非常实用的工具软件.%GCIS is a geochemical toolkit adopted the design ideas of the management information system (MIS),based on the development platform of Visual Basic.Net programming language,and Microsoft Office Access as background database for geochemical data.It will offer much more tectonic environment discrimination diagrams.In order to perform the function of editing and calculating of geochemical data,displaying of REE,trace elements spider diagrams and environmental discrimination diagrams,the databases and Graphical Device Interface (GDI) graphics and video processing technology of computer sciences were used.The software includes different functional modules and provides abundant geochemical diagrams including a great number of diagrams of rock classification,elements distribution and tectonic discrimination for basalt,granite and sedimentary rock.To demonstrate the efficacity of this toolkit,GCIS was used in the study of the petrogenesis and tectonic setting of the Jianshui area,southeastern Yunnan province.The application of the toolkit in the

  3. Piezoresistive Chemical Sensors Based on Functionalized Hydrogels

    Directory of Open Access Journals (Sweden)

    Margarita Guenther

    2014-06-01

    Full Text Available Thin films of analyte-specific hydrogels were combined with microfabricated piezoresistive pressure transducers to obtain chemomechanical sensors that can serve as selective biochemical sensors for a continuous monitoring of metabolites. The gel swelling pressure has been monitored in simulated physiological solutions by means of the output signal of piezoresistive sensors. The interference by fructose, human serum albumin, pH, and ionic concentration on glucose sensing was studied. With the help of a database containing the calibration curves of the hydrogel-based sensors at different values of pH and ionic strength, the corrected values of pH and glucose concentration were determined using a novel calibration algorithm.

  4. 网格开发工具Globus Toolkit 4的安装与配置%Installation and Configuration of Grid Development Tools Globus Toolkit 4

    Institute of Scientific and Technical Information of China (English)

    焦鸿斌; 刘晓彦; 李新蕾; 矫亮; 陈桂芬

    2010-01-01

    Globus Toolkit是当前建立网格系统的核心实现工具之一,介绍了Globus工具集的起源、功能与构成,并对Globus Toolkit 4在Linux环境下的安装与配置进行了详细的阐述.

  5. Toward a VPH/Physiome ToolKit.

    Science.gov (United States)

    Garny, Alan; Cooper, Jonathan; Hunter, Peter J

    2010-01-01

    The Physiome Project was officially launched in 1997 and has since brought together teams from around the world to work on the development of a computational framework for the modeling of the human body. At the European level, this effort is focused around patient-specific solutions and is known as the Virtual Physiological Human (VPH) Initiative.Such modeling is both multiscale (in space and time) and multiphysics. This, therefore, requires careful interaction and collaboration between the teams involved in the VPH/Physiome effort, if we are to produce computer models that are not only quantitative, but also integrative and predictive.In that context, several technologies and solutions are already available, developed both by groups involved in the VPH/Physiome effort, and by others. They address areas such as data handling/fusion, markup languages, model repositories, ontologies, tools (for simulation, imaging, data fitting, etc.), as well as grid, middleware, and workflow.Here, we provide an overview of resources that should be considered for inclusion in the VPH/Physiome ToolKit (i.e., the set of tools that addresses the needs and requirements of the Physiome Project and VPH Initiative) and discuss some of the challenges that we are still facing.

  6. LOV to BLUF: Flavoprotein Contributions to the Optogenetic Toolkit

    Institute of Scientific and Technical Information of China (English)

    John M. Christie; Jayde Gawthorne; Gillian Young; Niall J. Fraser; Andrew J. Roe

    2012-01-01

    Optogenetics is an emerging field that combines optical and genetic approaches to non-invasively interfere with cellular events with exquisite spatiotemporal control.Although it arose originally from neuroscience,optogenetics is widely applicable to the study of many different biological systems and the range of applications arising from this technology continues to increase.Moreover,the repertoire of light-sensitive proteins used for devising new optogenetic tools is rapidly expanding.Light,Oxygen,or Voltage sensing (LOV) and Blue-Light-Utilizing flavin adenine dinucleotide (FAD) (BLUF) domains represent new contributors to the optogenetic toolkit.These small (100-140-amino acids) flavoprotein modules are derived from plant and bacterial photoreceptors that respond to UV-A/blue light.In recent years,considerable progress has been made in uncovering the photoactivation mechanisms of both LOV and BLUF domains.This knowledge has been applied in the design of synthetic photoswitches and fluorescent reporters with applications in cell biology and biotechnology.In this review,we summarize the photochemical properties of LOV and BLUF photosensors and highlight some of the recent advances in how these flavoproteins are being employed to artificially regulate and image a variety of biological processes.

  7. TMVA - Tool-kit for Multivariate Data Analysis in ROOT

    Energy Technology Data Exchange (ETDEWEB)

    Therhaag, Jan; Von Toerne, Eckhard [Univ. Bonn, Physikalisches Institut, Nussallee 12, 53115 Bonn (Germany); Hoecker, Andreas; Speckmayer, Peter [European Organization for Nuclear Research - CERN, CH-1211 Geneve 23 (Switzerland); Stelzer, Joerg [Deutsches Elektronen-Synchrotron - DESY, Platanenallee 6, D-15738 Zeuthen (Germany); Voss, Helge [Max-Planck-Institut fuer Kernphysik - MPI, Postfach 10 39 80, Saupfercheckweg 1, DE-69117 Heidelberg (Germany)

    2010-07-01

    Given the ever-increasing complexity of modern HEP data analysis, multivariate analysis techniques have proven an indispensable tool in extracting the most valuable information from the data. TMVA, the Tool-kit for Multivariate Data Analysis, provides a large variety of advanced multivariate analysis techniques for both signal/background classification and regression problems. In TMVA, all methods are embedded in a user-friendly framework capable of handling the pre-processing of the data as well as the evaluation of the results, thus allowing for a simple use of even the most sophisticated multivariate techniques. Convenient assessment and comparison of different analysis techniques enable the user to choose the most efficient approach for any particular data analysis task. TMVA is an integral part of the ROOT data analysis framework and is widely-used in the LHC experiments. In this talk I will review recent developments in TMVA, discuss typical use-cases in HEP and present the performance of our most important multivariate techniques on example data by comparing it to theoretical performance limits. (authors)

  8. Machine learning for a Toolkit for Image Mining

    Science.gov (United States)

    Delanoy, Richard L.

    1995-01-01

    A prototype user environment is described that enables a user with very limited computer skills to collaborate with a computer algorithm to develop search tools (agents) that can be used for image analysis, creating metadata for tagging images, searching for images in an image database on the basis of image content, or as a component of computer vision algorithms. Agents are learned in an ongoing, two-way dialogue between the user and the algorithm. The user points to mistakes made in classification. The algorithm, in response, attempts to discover which image attributes are discriminating between objects of interest and clutter. It then builds a candidate agent and applies it to an input image, producing an 'interest' image highlighting features that are consistent with the set of objects and clutter indicated by the user. The dialogue repeats until the user is satisfied. The prototype environment, called the Toolkit for Image Mining (TIM) is currently capable of learning spectral and textural patterns. Learning exhibits rapid convergence to reasonable levels of performance and, when thoroughly trained, Fo appears to be competitive in discrimination accuracy with other classification techniques.

  9. Integrating the microbiome as a resource in the forensics toolkit.

    Science.gov (United States)

    Clarke, Thomas H; Gomez, Andres; Singh, Harinder; Nelson, Karen E; Brinkac, Lauren M

    2017-09-01

    The introduction of DNA fingerprinting to forensic science rapidly expanded the available evidence that could be garnered from a crime scene and used in court cases. Next generation sequencing technologies increased available genetic data that could be used as evidence by orders of magnitude, and as such, significant additional genetic information is now available for use in forensic science. This includes DNA from the bacteria that live in and on humans, known as the human microbiome. Next generation sequencing of the human microbiome demonstrates that its bacterial DNA can be used to uniquely identify an individual, provide information about their life and behavioral patterns, determine the body site where a sample came from, and estimate postmortem intervals. Bacterial samples from the environment and objects can also be leveraged to address similar questions about the individual(s) who interacted with them. However, the applications of this new field in forensic sciences raises concerns on current methods used in sample processing, including sample collection, storage, and the statistical power of published studies. These areas of human microbiome research need to be fully addressed before microbiome data can become a regularly incorporated evidence type and routine procedure of the forensic toolkit. Here, we summarize information on the current status of microbiome research as applies to the forensic field, the mathematical models used to make predictions, and the possible legal and practical difficulties that can limit the application of microbiomes in forensic science. Copyright © 2017 The Authors. Published by Elsevier B.V. All rights reserved.

  10. First responder tracking and visualization for command and control toolkit

    Science.gov (United States)

    Woodley, Robert; Petrov, Plamen; Meisinger, Roger

    2010-04-01

    In order for First Responder Command and Control personnel to visualize incidents at urban building locations, DHS sponsored a small business research program to develop a tool to visualize 3D building interiors and movement of First Responders on site. 21st Century Systems, Inc. (21CSI), has developed a toolkit called Hierarchical Grid Referenced Normalized Display (HiGRND). HiGRND utilizes three components to provide a full spectrum of visualization tools to the First Responder. First, HiGRND visualizes the structure in 3D. Utilities in the 3D environment allow the user to switch between views (2D floor plans, 3D spatial, evacuation routes, etc.) and manually edit fast changing environments. HiGRND accepts CAD drawings and 3D digital objects and renders these in the 3D space. Second, HiGRND has a First Responder tracker that uses the transponder signals from First Responders to locate them in the virtual space. We use the movements of the First Responder to map the interior of structures. Finally, HiGRND can turn 2D blueprints into 3D objects. The 3D extruder extracts walls, symbols, and text from scanned blueprints to create the 3D mesh of the building. HiGRND increases the situational awareness of First Responders and allows them to make better, faster decisions in critical urban situations.

  11. Quality improvement projects targeting health care-associated infections: comparing Virtual Collaborative and Toolkit approaches.

    Science.gov (United States)

    Speroff, Theodore; Ely, E Wes; Greevy, Robert; Weinger, Matthew B; Talbot, Thomas R; Wall, Richard J; Deshpande, Jayant K; France, Daniel J; Nwosu, Sam; Burgess, Hayley; Englebright, Jane; Williams, Mark V; Dittus, Robert S

    2011-05-01

    Collaborative and toolkit approaches have gained traction for improving quality in health care. To determine if a quality improvement virtual collaborative intervention would perform better than a toolkit-only approach at preventing central line-associated bloodstream infections (CLABSIs) and ventilator-associated pneumonias (VAPs). Cluster randomized trial with the Intensive Care Units (ICUs) of 60 hospitals assigned to the Toolkit (n=29) or Virtual Collaborative (n=31) group from January 2006 through September 2007. CLABSI and VAP rates. Follow-up survey on improvement interventions, toolkit utilization, and strategies for implementing improvement. A total of 83% of the Collaborative ICUs implemented all CLABSI interventions compared to 64% of those in the Toolkit group (P = 0.13), implemented daily catheter reviews more often (P = 0.04), and began this intervention sooner (P < 0.01). Eighty-six percent of the Collaborative group implemented the VAP bundle compared to 64% of the Toolkit group (P = 0.06). The CLABSI rate was 2.42 infections per 1000 catheter days at baseline and 2.73 at 18 months (P = 0.59). The VAP rate was 3.97 per 1000 ventilator days at baseline and 4.61 at 18 months (P = 0.50). Neither group improved outcomes over time; there was no differential performance between the 2 groups for either CLABSI rates (P = 0.71) or VAP rates (P = 0.80). The intensive collaborative approach outpaced the simpler toolkit approach in changing processes of care, but neither approach improved outcomes. Incorporating quality improvement methods, such as ICU checklists, into routine care processes is complex, highly context-dependent, and may take longer than 18 months to achieve. Copyright © 2011 Society of Hospital Medicine.

  12. Functionalized gold nanorod solution via reverse micelle based polyacrylate coating.

    Science.gov (United States)

    Basiruddin, S K; Saha, Arindam; Pradhan, Narayan; Jana, Nikhil R

    2010-05-18

    Functionalization of gold nanorods is a key issue for their biomedical application, and currently it is performed via either electrostatic interaction or thiol based strategy. We have developed a polyacrylate based coating chemistry for gold nanorods that can be used in deriving a variety of functional nanorods with high colloidal stability. The coating processes can introduce primary amines, fluorescein, or poly(ethylene glycol) (PEG) on the nanorod surface in one step process. While fluorescein incorporation can produce fluorescent nanorods, primary amine groups can be used for further functionalization. Various functional nanorods have been successfully synthesized from these coated nanorods and used in different applications. Glucose and biotin functionalized nanorods are used for protein detection, and oleyl functionalized nanorods with fluorescein incorporated in the polymer shell are used for fluorescence based cell labeling.

  13. Functional group based Ligand binding affinity scoring function at atomic environmental level

    Science.gov (United States)

    Varadwaj, Pritish Kumar; Lahiri, Tapobrata

    2009-01-01

    Use of knowledge based scoring function (KBSF) for virtual screening and molecular docking has become an established method for drug discovery. Lack of a precise and reliable free energy function that describes several interactions including water-mediated atomic interaction between amino-acid residues and ligand makes distance based statistical measure as the only alternative. Till now all the distance based scoring functions in KBSF arena use atom singularity concept, which neglects the environmental effect of the atom under consideration. We have developed a novel knowledge-based statistical energy function for protein-ligand complexes which takes atomic environment in to account hence functional group as a singular entity. The proposed knowledge based scoring function is fast, simple to construct, easy to use and moreover it tackle the existing problem of handling molecular orientation in active site pocket. We have designed and used Functional group based Ligand retrieval (FBLR) system which can identify and detect the orientation of functional groups in ligand. This decoy searching was used to build the above KBSF to quantify the activity and affinity of high resolution protein-ligand complexes. We have proposed the probable use of these decoys in molecular build-up as a de-novo drug designing approach. We have also discussed the possible use of the said KSBF in pharmacophore fragment detection and pseudo center based fragment alignment procedure. PMID:19255647

  14. In silico toxicology models and databases as FDA Critical Path Initiative toolkits.

    Science.gov (United States)

    Valerio, Luis G

    2011-03-01

    In silico toxicology methods are practical, evidence-based and high throughput, with varying accuracy. In silico approaches are of keen interest, not only to scientists in the private sector and to academic researchers worldwide, but also to the public. They are being increasingly evaluated and applied by regulators. Although there are foreseeable beneficial aspects--including maximising use of prior test data and the potential for minimising animal use for future toxicity testing--the primary use of in silico toxicology methods in the pharmaceutical sciences are as decision support information. It is possible for in silico toxicology methods to complement and strengthen the evidence for certain regulatory review processes, and to enhance risk management by supporting a more informed decision regarding priority setting for additional toxicological testing in research and product development. There are also several challenges with these continually evolving methods which clearly must be considered. This mini-review describes in silico methods that have been researched as Critical Path Initiative toolkits for predicting toxicities early in drug development based on prior knowledge derived from preclinical and clinical data at the US Food and Drug Administration, Center for Drug Evaluation and Research.

  15. In silico toxicology models and databases as FDA Critical Path Initiative toolkits

    Directory of Open Access Journals (Sweden)

    Valerio Luis G

    2011-03-01

    Full Text Available Abstract In silico toxicology methods are practical, evidence-based and high throughput, with varying accuracy. In silico approaches are of keen interest, not only to scientists in the private sector and to academic researchers worldwide, but also to the public. They are being increasingly evaluated and applied by regulators. Although there are foreseeable beneficial aspects -- including maximising use of prior test data and the potential for minimising animal use for future toxicity testing -- the primary use of in silico toxicology methods in the pharmaceutical sciences are as decision support information. It is possible for in silico toxicology methods to complement and strengthen the evidence for certain regulatory review processes, and to enhance risk management by supporting a more informed decision regarding priority setting for additional toxicological testing in research and product development. There are also several challenges with these continually evolving methods which clearly must be considered. This mini-review describes in silico methods that have been researched as Critical Path Initiative toolkits for predicting toxicities early in drug development based on prior knowledge derived from preclinical and clinical data at the US Food and Drug Administration, Center for Drug Evaluation and Research.

  16. The GBIF integrated publishing toolkit: facilitating the efficient publishing of biodiversity data on the internet.

    Directory of Open Access Journals (Sweden)

    Tim Robertson

    Full Text Available The planet is experiencing an ongoing global biodiversity crisis. Measuring the magnitude and rate of change more effectively requires access to organized, easily discoverable, and digitally-formatted biodiversity data, both legacy and new, from across the globe. Assembling this coherent digital representation of biodiversity requires the integration of data that have historically been analog, dispersed, and heterogeneous. The Integrated Publishing Toolkit (IPT is a software package developed to support biodiversity dataset publication in a common format. The IPT's two primary functions are to 1 encode existing species occurrence datasets and checklists, such as records from natural history collections or observations, in the Darwin Core standard to enhance interoperability of data, and 2 publish and archive data and metadata for broad use in a Darwin Core Archive, a set of files following a standard format. Here we discuss the key need for the IPT, how it has developed in response to community input, and how it continues to evolve to streamline and enhance the interoperability, discoverability, and mobilization of new data types beyond basic Darwin Core records. We close with a discussion how IPT has impacted the biodiversity research community, how it enhances data publishing in more traditional journal venues, along with new features implemented in the latest version of the IPT, and future plans for more enhancements.

  17. Open Plot Project: an open-source toolkit for 3-D structural data analysis

    Directory of Open Access Journals (Sweden)

    S. Tavani

    2011-05-01

    Full Text Available In this work we present the Open Plot Project, an open-source software for structural data analysis, including a 3-D environment. The software includes many classical functionalities of structural data analysis tools, like stereoplot, contouring, tensorial regression, scatterplots, histograms and transect analysis. In addition, efficient filtering tools are present allowing the selection of data according to their attributes, including spatial distribution and orientation. This first alpha release represents a stand-alone toolkit for structural data analysis.

    The presence of a 3-D environment with digitalising tools allows the integration of structural data with information extracted from georeferenced images to produce structurally validated dip domains. This, coupled with many import/export facilities, allows easy incorporation of structural analyses in workflows for 3-D geological modelling. Accordingly, Open Plot Project also candidates as a structural add-on for 3-D geological modelling software.

    The software (for both Windows and Linux O.S., the User Manual, a set of example movies (complementary to the User Manual, and the source code are provided as Supplement. We intend the publication of the source code to set the foundation for free, public software that, hopefully, the structural geologists' community will use, modify, and implement. The creation of additional public controls/tools is strongly encouraged.

  18. molSimplify: A toolkit for automating discovery in inorganic chemistry.

    Science.gov (United States)

    Ioannidis, Efthymios I; Gani, Terry Z H; Kulik, Heather J

    2016-08-15

    We present an automated, open source toolkit for the first-principles screening and discovery of new inorganic molecules and intermolecular complexes. Challenges remain in the automatic generation of candidate inorganic molecule structures due to the high variability in coordination and bonding, which we overcome through a divide-and-conquer tactic that flexibly combines force-field preoptimization of organic fragments with alignment to first-principles-trained metal-ligand distances. Exploration of chemical space is enabled through random generation of ligands and intermolecular complexes from large chemical databases. We validate the generated structures with the root mean squared (RMS) gradients evaluated from density functional theory (DFT), which are around 0.02 Ha/au across a large 150 molecule test set. Comparison of molSimplify results to full optimization with the universal force field reveals that RMS DFT gradients are improved by 40%. Seamless generation of input files, preparation and execution of electronic structure calculations, and post-processing for each generated structure aids interpretation of underlying chemical and energetic trends. © 2016 Wiley Periodicals, Inc.

  19. The GBIF integrated publishing toolkit: facilitating the efficient publishing of biodiversity data on the internet.

    Science.gov (United States)

    Robertson, Tim; Döring, Markus; Guralnick, Robert; Bloom, David; Wieczorek, John; Braak, Kyle; Otegui, Javier; Russell, Laura; Desmet, Peter

    2014-01-01

    The planet is experiencing an ongoing global biodiversity crisis. Measuring the magnitude and rate of change more effectively requires access to organized, easily discoverable, and digitally-formatted biodiversity data, both legacy and new, from across the globe. Assembling this coherent digital representation of biodiversity requires the integration of data that have historically been analog, dispersed, and heterogeneous. The Integrated Publishing Toolkit (IPT) is a software package developed to support biodiversity dataset publication in a common format. The IPT's two primary functions are to 1) encode existing species occurrence datasets and checklists, such as records from natural history collections or observations, in the Darwin Core standard to enhance interoperability of data, and 2) publish and archive data and metadata for broad use in a Darwin Core Archive, a set of files following a standard format. Here we discuss the key need for the IPT, how it has developed in response to community input, and how it continues to evolve to streamline and enhance the interoperability, discoverability, and mobilization of new data types beyond basic Darwin Core records. We close with a discussion how IPT has impacted the biodiversity research community, how it enhances data publishing in more traditional journal venues, along with new features implemented in the latest version of the IPT, and future plans for more enhancements.

  20. Silken toolkits: biomechanics of silk fibers spun by the orb web spider Argiope argentata (Fabricius 1775).

    Science.gov (United States)

    Blackledge, Todd A; Hayashi, Cheryl Y

    2006-07-01

    Orb-weaving spiders spin five fibrous silks from differentiated glands that contain unique sets of proteins. Despite diverse ecological functions, the mechanical properties of most of these silks are not well characterized. Here, we quantify the mechanical performance of this toolkit of silks for the silver garden spider Argiope argentata. Four silks exhibit viscoelastic behaviour typical of polymers, but differ statistically from each other by up to 250% in performance, giving each silk a distinctive suite of material properties. Major ampullate silk is 50% stronger than other fibers, but also less extensible. Aciniform silk is almost twice as tough as other silks because of high strength and extensibility. Capture spiral silk, coated with aqueous glue, is an order of magnitude stretchier than other silks. Dynamic mechanical properties are qualitatively similar, but quantitatively vary by up to 300% among silks. Storage moduli are initially nearly constant and increase after fiber yield, whereas loss tangents reach maxima of 0.1-0.2 at the yield. The remarkable mechanical diversity of Argiope argentata silks probably results in part from the different molecular structures of fibers and can be related to the specific ecological role of each silk. Our study indicates substantial potential to customize the mechanics of bioengineered silks.