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Sample records for splice-site analysis tools

  1. Systematic Analysis of Splice-Site-Creating Mutations in Cancer

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    Reyka G. Jayasinghe

    2018-04-01

    Full Text Available Summary: For the past decade, cancer genomic studies have focused on mutations leading to splice-site disruption, overlooking those having splice-creating potential. Here, we applied a bioinformatic tool, MiSplice, for the large-scale discovery of splice-site-creating mutations (SCMs across 8,656 TCGA tumors. We report 1,964 originally mis-annotated mutations having clear evidence of creating alternative splice junctions. TP53 and GATA3 have 26 and 18 SCMs, respectively, and ATRX has 5 from lower-grade gliomas. Mutations in 11 genes, including PARP1, BRCA1, and BAP1, were experimentally validated for splice-site-creating function. Notably, we found that neoantigens induced by SCMs are likely several folds more immunogenic compared to missense mutations, exemplified by the recurrent GATA3 SCM. Further, high expression of PD-1 and PD-L1 was observed in tumors with SCMs, suggesting candidates for immune blockade therapy. Our work highlights the importance of integrating DNA and RNA data for understanding the functional and the clinical implications of mutations in human diseases. : Jayasinghe et al. identify nearly 2,000 splice-site-creating mutations (SCMs from over 8,000 tumor samples across 33 cancer types. They provide a more accurate interpretation of previously mis-annotated mutations, highlighting the importance of integrating data types to understand the functional and the clinical implications of splicing mutations in human disease. Keywords: splicing, RNA, mutations of clinical relevance

  2. Systematic Analysis of Splice-Site-Creating Mutations in Cancer.

    Science.gov (United States)

    Jayasinghe, Reyka G; Cao, Song; Gao, Qingsong; Wendl, Michael C; Vo, Nam Sy; Reynolds, Sheila M; Zhao, Yanyan; Climente-González, Héctor; Chai, Shengjie; Wang, Fang; Varghese, Rajees; Huang, Mo; Liang, Wen-Wei; Wyczalkowski, Matthew A; Sengupta, Sohini; Li, Zhi; Payne, Samuel H; Fenyö, David; Miner, Jeffrey H; Walter, Matthew J; Vincent, Benjamin; Eyras, Eduardo; Chen, Ken; Shmulevich, Ilya; Chen, Feng; Ding, Li

    2018-04-03

    For the past decade, cancer genomic studies have focused on mutations leading to splice-site disruption, overlooking those having splice-creating potential. Here, we applied a bioinformatic tool, MiSplice, for the large-scale discovery of splice-site-creating mutations (SCMs) across 8,656 TCGA tumors. We report 1,964 originally mis-annotated mutations having clear evidence of creating alternative splice junctions. TP53 and GATA3 have 26 and 18 SCMs, respectively, and ATRX has 5 from lower-grade gliomas. Mutations in 11 genes, including PARP1, BRCA1, and BAP1, were experimentally validated for splice-site-creating function. Notably, we found that neoantigens induced by SCMs are likely several folds more immunogenic compared to missense mutations, exemplified by the recurrent GATA3 SCM. Further, high expression of PD-1 and PD-L1 was observed in tumors with SCMs, suggesting candidates for immune blockade therapy. Our work highlights the importance of integrating DNA and RNA data for understanding the functional and the clinical implications of mutations in human diseases. Copyright © 2018 The Authors. Published by Elsevier Inc. All rights reserved.

  3. Analysis and recognition of 5 ' UTR intron splice sites in human pre-mRNA

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    Eden, E.; Brunak, Søren

    2004-01-01

    Prediction of splice sites in non-coding regions of genes is one of the most challenging aspects of gene structure recognition. We perform a rigorous analysis of such splice sites embedded in human 5' untranslated regions (UTRs), and investigate correlations between this class of splice sites and...

  4. Analysis and prediction of gene splice sites in four Aspergillus genomes

    DEFF Research Database (Denmark)

    Wang, Kai; Ussery, David; Brunak, Søren

    2009-01-01

    Several Aspergillus fungal genomic sequences have been published, with many more in progress. Obviously, it is essential to have high-quality, consistently annotated sets of proteins from each of the genomes, in order to make meaningful comparisons. We have developed a dedicated, publicly available......, splice site prediction program called NetAspGene, for the genus Aspergillus. Gene sequences from Aspergillus fumigatus, the most common mould pathogen, were used to build and test our model. Compared to many animals and plants, Aspergillus contains smaller introns; thus we have applied a larger window...... better splice site prediction than other available tools. NetAspGene will be very helpful for the study in Aspergillus splice sites and especially in alternative splicing. A webpage for NetAspGene is publicly available at http://www.cbs.dtu.dk/services/NetAspGene....

  5. Analysis of 30 putative BRCA1 splicing mutations in hereditary breast and ovarian cancer families identifies exonic splice site mutations that escape in silico prediction.

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    Barbara Wappenschmidt

    Full Text Available Screening for pathogenic mutations in breast and ovarian cancer genes such as BRCA1/2, CHEK2 and RAD51C is common practice for individuals from high-risk families. However, test results may be ambiguous due to the presence of unclassified variants (UCV in the concurrent absence of clearly cancer-predisposing mutations. Especially the presence of intronic or exonic variants within these genes that possibly affect proper pre-mRNA processing poses a challenge as their functional implications are not immediately apparent. Therefore, it appears necessary to characterize potential splicing UCV and to develop appropriate classification tools. We investigated 30 distinct BRCA1 variants, both intronic and exonic, regarding their spliceogenic potential by commonly used in silico prediction algorithms (HSF, MaxEntScan along with in vitro transcript analyses. A total of 25 variants were identified spliceogenic, either causing/enhancing exon skipping or activation of cryptic splice sites, or both. Except from a single intronic variant causing minor effects on BRCA1 pre-mRNA processing in our analyses, 23 out of 24 intronic variants were correctly predicted by MaxEntScan, while HSF was less accurate in this cohort. Among the 6 exonic variants analyzed, 4 severely impair correct pre-mRNA processing, while the remaining two have partial effects. In contrast to the intronic alterations investigated, only half of the spliceogenic exonic variants were correctly predicted by HSF and/or MaxEntScan. These data support the idea that exonic splicing mutations are commonly disease-causing and concurrently prone to escape in silico prediction, hence necessitating experimental in vitro splicing analysis.

  6. Splice Site Mutations in the ATP7A Gene

    DEFF Research Database (Denmark)

    Skjørringe, Tina; Tümer, Zeynep; Møller, Lisbeth Birk

    2011-01-01

    Menkes disease (MD) is caused by mutations in the ATP7A gene. We describe 33 novel splice site mutations detected in patients with MD or the milder phenotypic form, Occipital Horn Syndrome. We review these 33 mutations together with 28 previously published splice site mutations. We investigate 12...... mutations for their effect on the mRNA transcript in vivo. Transcriptional data from another 16 mutations were collected from the literature. The theoretical consequences of splice site mutations, predicted with the bioinformatics tool Human Splice Finder, were investigated and evaluated in relation...... to in vivo results. Ninety-six percent of the mutations identified in 45 patients with classical MD were predicted to have a significant effect on splicing, which concurs with the absence of any detectable wild-type transcript in all 19 patients investigated in vivo. Sixty-seven percent of the mutations...

  7. Method of predicting Splice Sites based on signal interactions

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    Deogun Jitender S

    2006-04-01

    Full Text Available Abstract Background Predicting and proper ranking of canonical splice sites (SSs is a challenging problem in bioinformatics and machine learning communities. Any progress in SSs recognition will lead to better understanding of splicing mechanism. We introduce several new approaches of combining a priori knowledge for improved SS detection. First, we design our new Bayesian SS sensor based on oligonucleotide counting. To further enhance prediction quality, we applied our new de novo motif detection tool MHMMotif to intronic ends and exons. We combine elements found with sensor information using Naive Bayesian Network, as implemented in our new tool SpliceScan. Results According to our tests, the Bayesian sensor outperforms the contemporary Maximum Entropy sensor for 5' SS detection. We report a number of putative Exonic (ESE and Intronic (ISE Splicing Enhancers found by MHMMotif tool. T-test statistics on mouse/rat intronic alignments indicates, that detected elements are on average more conserved as compared to other oligos, which supports our assumption of their functional importance. The tool has been shown to outperform the SpliceView, GeneSplicer, NNSplice, Genio and NetUTR tools for the test set of human genes. SpliceScan outperforms all contemporary ab initio gene structural prediction tools on the set of 5' UTR gene fragments. Conclusion Designed methods have many attractive properties, compared to existing approaches. Bayesian sensor, MHMMotif program and SpliceScan tools are freely available on our web site. Reviewers This article was reviewed by Manyuan Long, Arcady Mushegian and Mikhail Gelfand.

  8. Human Splice-Site Prediction with Deep Neural Networks.

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    Naito, Tatsuhiko

    2018-04-18

    Accurate splice-site prediction is essential to delineate gene structures from sequence data. Several computational techniques have been applied to create a system to predict canonical splice sites. For classification tasks, deep neural networks (DNNs) have achieved record-breaking results and often outperformed other supervised learning techniques. In this study, a new method of splice-site prediction using DNNs was proposed. The proposed system receives an input sequence data and returns an answer as to whether it is splice site. The length of input is 140 nucleotides, with the consensus sequence (i.e., "GT" and "AG" for the donor and acceptor sites, respectively) in the middle. Each input sequence model is applied to the pretrained DNN model that determines the probability that an input is a splice site. The model consists of convolutional layers and bidirectional long short-term memory network layers. The pretraining and validation were conducted using the data set tested in previously reported methods. The performance evaluation results showed that the proposed method can outperform the previous methods. In addition, the pattern learned by the DNNs was visualized as position frequency matrices (PFMs). Some of PFMs were very similar to the consensus sequence. The trained DNN model and the brief source code for the prediction system are uploaded. Further improvement will be achieved following the further development of DNNs.

  9. GC content around splice sites affects splicing through pre-mRNA secondary structures

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    Chen Liang

    2011-01-01

    Full Text Available Abstract Background Alternative splicing increases protein diversity by generating multiple transcript isoforms from a single gene through different combinations of exons or through different selections of splice sites. It has been reported that RNA secondary structures are involved in alternative splicing. Here we perform a genomic study of RNA secondary structures around splice sites in humans (Homo sapiens, mice (Mus musculus, fruit flies (Drosophila melanogaster, and nematodes (Caenorhabditis elegans to further investigate this phenomenon. Results We observe that GC content around splice sites is closely associated with the splice site usage in multiple species. RNA secondary structure is the possible explanation, because the structural stability difference among alternative splice sites, constitutive splice sites, and skipped splice sites can be explained by the GC content difference. Alternative splice sites tend to be GC-enriched and exhibit more stable RNA secondary structures in all of the considered species. In humans and mice, splice sites of first exons and long exons tend to be GC-enriched and hence form more stable structures, indicating the special role of RNA secondary structures in promoter proximal splicing events and the splicing of long exons. In addition, GC-enriched exon-intron junctions tend to be overrepresented in tissue-specific alternative splice sites, indicating the functional consequence of the GC effect. Compared with regions far from splice sites and decoy splice sites, real splice sites are GC-enriched. We also found that the GC-content effect is much stronger than the nucleotide-order effect to form stable secondary structures. Conclusion All of these results indicate that GC content is related to splice site usage and it may mediate the splicing process through RNA secondary structures.

  10. A novel AVPR2 splice site mutation leads to partial X-linked nephrogenic diabetes insipidus in two brothers.

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    Schernthaner-Reiter, Marie Helene; Adams, David; Trivellin, Giampaolo; Ramnitz, Mary Scott; Raygada, Margarita; Golas, Gretchen; Faucz, Fabio R; Nilsson, Ola; Nella, Aikaterini A; Dileepan, Kavitha; Lodish, Maya; Lee, Paul; Tifft, Cynthia; Markello, Thomas; Gahl, William; Stratakis, Constantine A

    2016-05-01

    X-linked nephrogenic diabetes insipidus (NDI, OMIM#304800) is caused by mutations in the arginine vasopressin (AVP, OMIM*192340) receptor type 2 (AVPR2, OMIM*300538) gene. A 20-month-old boy and his 8-year-old brother presented with polyuria, polydipsia, and failure to thrive. Both boys demonstrated partial DDAVP (1-desamino-8-D AVP or desmopressin) responses; thus, NDI diagnosis was delayed. While routine sequencing of AVPR2 showed a potential splice site variant, it was not until exome sequencing confirmed the AVPR2 splice site variant and did not reveal any more likely candidates that the patients' diagnosis was made and proper treatment was instituted. Both patients were hemizygous for two AVPR2 variants predicted in silico to affect AVPR2 messenger RNA (mRNA) splicing. A minigene assay revealed that the novel AVPR2 c.276A>G mutation creates a novel splice acceptor site leading to 5' truncation of AVPR2 exon 2 in HEK293 human kidney cells. Both patients have been treated with high-dose DDAVP with a remarkable improvement of their symptoms and accelerated linear growth and weight gain. We present here a unique case of partial X-linked NDI due to an AVPR2 splice site mutation; patients with diabetes insipidus of unknown etiology may harbor splice site mutations that are initially underestimated in their pathogenicity on sequence analysis. • X-linked nephrogenic diabetes insipidus is caused by AVPR2 mutations, and disease severity can vary depending on the functional effect of the mutation. What is New: • We demonstrate here that a splice site mutation in AVPR2 leads to partial X-linked NDI in two brothers. • Treatment with high-dose DDAVP led to improvement of polyuria and polydipsia, weight gain, and growth.

  11. Theory on the Coupled Stochastic Dynamics of Transcription and Splice-Site Recognition

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    Murugan, Rajamanickam; Kreiman, Gabriel

    2012-01-01

    Eukaryotic genes are typically split into exons that need to be spliced together to form the mature mRNA. The splicing process depends on the dynamics and interactions among transcription by the RNA polymerase II complex (RNAPII) and the spliceosomal complex consisting of multiple small nuclear ribonucleo proteins (snRNPs). Here we propose a biophysically plausible initial theory of splicing that aims to explain the effects of the stochastic dynamics of snRNPs on the splicing patterns of eukaryotic genes. We consider two different ways to model the dynamics of snRNPs: pure three-dimensional diffusion and a combination of three- and one-dimensional diffusion along the emerging pre-mRNA. Our theoretical analysis shows that there exists an optimum position of the splice sites on the growing pre-mRNA at which the time required for snRNPs to find the 5′ donor site is minimized. The minimization of the overall search time is achieved mainly via the increase in non-specific interactions between the snRNPs and the growing pre-mRNA. The theory further predicts that there exists an optimum transcript length that maximizes the probabilities for exons to interact with the snRNPs. We evaluate these theoretical predictions by considering human and mouse exon microarray data as well as RNAseq data from multiple different tissues. We observe that there is a broad optimum position of splice sites on the growing pre-mRNA and an optimum transcript length, which are roughly consistent with the theoretical predictions. The theoretical and experimental analyses suggest that there is a strong interaction between the dynamics of RNAPII and the stochastic nature of snRNP search for 5′ donor splicing sites. PMID:23133354

  12. Theory on the coupled stochastic dynamics of transcription and splice-site recognition.

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    Rajamanickam Murugan

    Full Text Available Eukaryotic genes are typically split into exons that need to be spliced together to form the mature mRNA. The splicing process depends on the dynamics and interactions among transcription by the RNA polymerase II complex (RNAPII and the spliceosomal complex consisting of multiple small nuclear ribonucleo proteins (snRNPs. Here we propose a biophysically plausible initial theory of splicing that aims to explain the effects of the stochastic dynamics of snRNPs on the splicing patterns of eukaryotic genes. We consider two different ways to model the dynamics of snRNPs: pure three-dimensional diffusion and a combination of three- and one-dimensional diffusion along the emerging pre-mRNA. Our theoretical analysis shows that there exists an optimum position of the splice sites on the growing pre-mRNA at which the time required for snRNPs to find the 5' donor site is minimized. The minimization of the overall search time is achieved mainly via the increase in non-specific interactions between the snRNPs and the growing pre-mRNA. The theory further predicts that there exists an optimum transcript length that maximizes the probabilities for exons to interact with the snRNPs. We evaluate these theoretical predictions by considering human and mouse exon microarray data as well as RNAseq data from multiple different tissues. We observe that there is a broad optimum position of splice sites on the growing pre-mRNA and an optimum transcript length, which are roughly consistent with the theoretical predictions. The theoretical and experimental analyses suggest that there is a strong interaction between the dynamics of RNAPII and the stochastic nature of snRNP search for 5' donor splicing sites.

  13. A 5' splice site enhances the recruitment of basal transcription initiation factors in vivo

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    Damgaard, Christian Kroun; Kahns, Søren; Lykke-Andersen, Søren

    2008-01-01

    RNAs, harboring wild-type or various 5′ splice site mutations, we demonstrate a strong positive correlation between splicing efficiency and transcription activity. Interestingly, a 5′ splice site can stimulate transcription even in the absence of splicing. Chromatin immunoprecipitation experiments show enhanced...... a promoter-proximal 5′ splice site via its U1 snRNA interaction can feed back to stimulate transcription initiation by enhancing preinitiation complex assembly....

  14. Generation of iPSC line from desmin-related cardiomyopathy patient carrying splice site mutation of DES gene

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    Aleksandr Khudiakov

    2017-10-01

    Full Text Available Human iPSC line was generated from patient-specific adipose tissue-derived mesenchymal multipotent stromal cells carrying desmin (DES gene heterozygous splice site mutation using non-integrative reprogramming method. Reprogramming factors OCT4, KLF4, SOX2, CMYC were delivered using Sendai viruses. iPSCs were characterized by sequencing, karyotype analysis, STR analysis, immunocytochemistry, RT-PCR and teratoma formation.

  15. Human Splicing Finder: an online bioinformatics tool to predict splicing signals

    OpenAIRE

    Desmet, Francois-Olivier; Hamroun, Dalil; Lalande, Marine; Collod-Beroud, Gwenaelle; Claustres, Mireille; Beroud, Christophe

    2009-01-01

    International audience; Thousands of mutations are identified yearly. Although many directly affect protein expression, an increasing proportion of mutations is now believed to influence mRNA splicing. They mostly affect existing splice sites, but synonymous, non-synonymous or nonsense mutations can also create or disrupt splice sites or auxiliary cis-splicing sequences. To facilitate the analysis of the different mutations, we designed Human Splicing Finder (HSF), a tool to predict the effec...

  16. Identification and characterization of a novel XK splice site mutation in a patient with McLeod syndrome.

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    Arnaud, Lionel; Salachas, François; Lucien, Nicole; Maisonobe, Thierry; Le Pennec, Pierre-Yves; Babinet, Jérôme; Cartron, Jean-Pierre

    2009-03-01

    McLeod syndrome is a rare X-linked neuroacanthocytosis syndrome with hematologic, muscular, and neurologic manifestations. McLeod syndrome is caused by mutations in the XK gene whose product is expressed at the red blood cell (RBC) surface but whose function is currently unknown. A variety of XK mutations has been reported but no clear phenotype-genotype correlation has been found, especially for the point mutations affecting splicing sites. A man suspected of neuroacanthocytosis was evaluated by neurologic examination, electromyography, muscle biopsy, muscle computed tomography, and cerebral magnetic resonance imaging. The McLeod RBC phenotype was disclosed by blood smear and immunohematology analyses and then confirmed at the biochemical level by Western blot analysis. The responsible XK mutation was characterized at the mRNA level by reverse transcription-polymerase chain reaction (PCR), identified by genomic DNA sequencing, and verified by allele-specific PCR. A novel XK splice site mutation (IVS1-1G>A) has been identified in a McLeod patient who has developed hematologic, neuromuscular, and neurologic symptoms. This is the first reported example of a XK point mutation affecting the 3' acceptor splice site of Intron 1, and it was demonstrated that this mutation indeed induces aberrant splicing of XK RNA and lack of XK protein at the RBC membrane. The detailed characterization at the molecular biology level of this novel XK splice site mutation associated with the clinical description of the patient contributes to a better understanding of the phenotype-genotype correlation in the McLeod syndrome.

  17. Prenatal diagnosis and a donor splice site mutation in fibrillin in a family with Marfan syndrome

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    Godfrey, M.; Vandemark, N.; Wang, M.; Han, J.; Rao, V.H. (Univ. of Nebraska Medical Center, Omaha (United States)); Velinov, M.; Tsipouras, P. (Univ. of Connecticut Health Sciences Center, Farmington (United States)); Wargowski, D.; Becker, J.; Robertson, W.; Droste, S. (Univ. of Wisconsin, Madison (United States))

    1993-08-01

    The Marfan syndrome, an autosomal dominant connective tissue disorder, is manifested by abnormalities in the cardiovascular, skeletal, and ocular systems. Recently, fibrillin, an elastic-associated microfibrillar glycoprotein, has been linked to the Marfan syndrome, and fibrillin mutations in affected individuals have been documented. In this study, genetic linkage analysis with fibrillin-specific markers was used to establish the prenatal diagnosis in an 11-wk-gestation fetus in a four-generation Marfan kindred. At birth, skeletal changes suggestive of the Marfan syndrome were observed. Reverse transcription-PCR amplification of the fibrillin gene mRNA detected a deletion of 123 bp in one allele in affected relatives. This deletion corresponds to an exon encoding an epidermal growth factor-like motif. Examination of genomic DNA showed a G[yields]C transversion at the +1 consensus donor splice site. 45 refs., 7 figs.

  18. Position dependence of the rous sarcoma virus negative regulator of splicing element reflects proximity to a 5' splice site

    International Nuclear Information System (INIS)

    Wang Yuedi; McNally, Mark T.

    2003-01-01

    Rous sarcoma virus (RSV) requires incomplete splicing of its viral transcripts to maintain efficient replication. A splicing inhibitor element, the negative regulator of splicing (NRS), is located near the 5' end of the RNA but the significance of this positioning is not known. In a heterologous intron the NRS functions optimally when positioned close to the authentic 5' splice site. This observation led us to investigate the basis of the position dependence. Four explanations were put forth and stressed the role of three major elements involved in splicing, the 3' splice site, the 5' splice site, and the 5' end cap structure. NRS function was unrelated to its position relative to the 3' splice site or the cap structure and appeared to depend on its position relative to the authentic 5' splice site. We conclude that position dependence may reflect distance constraints necessary for competition of the NRS with the authentic 5' splice site for pairing with the 3' splice sites

  19. Features generated for computational splice-site prediction correspond to functional elements

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    Wilbur W John

    2007-10-01

    Full Text Available Abstract Background Accurate selection of splice sites during the splicing of precursors to messenger RNA requires both relatively well-characterized signals at the splice sites and auxiliary signals in the adjacent exons and introns. We previously described a feature generation algorithm (FGA that is capable of achieving high classification accuracy on human 3' splice sites. In this paper, we extend the splice-site prediction to 5' splice sites and explore the generated features for biologically meaningful splicing signals. Results We present examples from the observed features that correspond to known signals, both core signals (including the branch site and pyrimidine tract and auxiliary signals (including GGG triplets and exon splicing enhancers. We present evidence that features identified by FGA include splicing signals not found by other methods. Conclusion Our generated features capture known biological signals in the expected sequence interval flanking splice sites. The method can be easily applied to other species and to similar classification problems, such as tissue-specific regulatory elements, polyadenylation sites, promoters, etc.

  20. On splice site prediction using weight array models: a comparison of smoothing techniques

    International Nuclear Information System (INIS)

    Taher, Leila; Meinicke, Peter; Morgenstern, Burkhard

    2007-01-01

    In most eukaryotic genes, protein-coding exons are separated by non-coding introns which are removed from the primary transcript by a process called 'splicing'. The positions where introns are cut and exons are spliced together are called 'splice sites'. Thus, computational prediction of splice sites is crucial for gene finding in eukaryotes. Weight array models are a powerful probabilistic approach to splice site detection. Parameters for these models are usually derived from m-tuple frequencies in trusted training data and subsequently smoothed to avoid zero probabilities. In this study we compare three different ways of parameter estimation for m-tuple frequencies, namely (a) non-smoothed probability estimation, (b) standard pseudo counts and (c) a Gaussian smoothing procedure that we recently developed

  1. Exome Sequencing Identified a Splice Site Mutation in FHL1 that Causes Uruguay Syndrome, an X-Linked Disorder With Skeletal Muscle Hypertrophy and Premature Cardiac Death.

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    Xue, Yuan; Schoser, Benedikt; Rao, Aliz R; Quadrelli, Roberto; Vaglio, Alicia; Rupp, Verena; Beichler, Christine; Nelson, Stanley F; Schapacher-Tilp, Gudrun; Windpassinger, Christian; Wilcox, William R

    2016-04-01

    Previously, we reported a rare X-linked disorder, Uruguay syndrome in a single family. The main features are pugilistic facies, skeletal deformities, and muscular hypertrophy despite a lack of exercise and cardiac ventricular hypertrophy leading to premature death. An ≈19 Mb critical region on X chromosome was identified through identity-by-descent analysis of 3 affected males. Exome sequencing was conducted on one affected male to identify the disease-causing gene and variant. A splice site variant (c.502-2A>G) in the FHL1 gene was highly suspicious among other candidate genes and variants. FHL1A is the predominant isoform of FHL1 in cardiac and skeletal muscle. Sequencing cDNA showed the splice site variant led to skipping of exons 6 of the FHL1A isoform, equivalent to the FHL1C isoform. Targeted analysis showed that this splice site variant cosegregated with disease in the family. Western blot and immunohistochemical analysis of muscle from the proband showed a significant decrease in protein expression of FHL1A. Real-time polymerase chain reaction analysis of different isoforms of FHL1 demonstrated that the FHL1C is markedly increased. Mutations in the FHL1 gene have been reported in disorders with skeletal and cardiac myopathy but none has the skeletal or facial phenotype seen in patients with Uruguay syndrome. Our data suggest that a novel FHL1 splice site variant results in the absence of FHL1A and the abundance of FHL1C, which may contribute to the complex and severe phenotype. Mutation screening of the FHL1 gene should be considered for patients with uncharacterized myopathies and cardiomyopathies. © 2016 American Heart Association, Inc.

  2. Autosomal dominant pseudohypoaldosteronism type 1 with a novel splice site mutation in MR gene

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    Kaito Hiroshi

    2009-11-01

    Full Text Available Abstract Background Autosomal dominant pseudohypoaldosteronism type 1 (PHA1 is a rare inherited condition that is characterized by renal resistance to aldosterone as well as salt wasting, hyperkalemia, and metabolic acidosis. Renal PHA1 is caused by mutations of the human mineralcorticoid receptor gene (MR, but it is a matter of debate whether MR mutations cause mineralcorticoid resistance via haploinsufficiency or dominant negative mechanism. It was previously reported that in a case with nonsense mutation the mutant mRNA was absent in lymphocytes because of nonsense mediated mRNA decay (NMD and therefore postulated that haploinsufficiency alone can give rise to the PHA1 phenotype in patients with truncated mutations. Methods and Results We conducted genomic DNA analysis and mRNA analysis for familial PHA1 patients extracted from lymphocytes and urinary sediments and could detect one novel splice site mutation which leads to exon skipping and frame shift result in premature termination at the transcript level. The mRNA analysis showed evidence of wild type and exon-skipped RT-PCR products. Conclusion mRNA analysis have been rarely conducted for PHA1 because kidney tissues are unavailable for this disease. However, we conducted RT-PCR analysis using mRNA extracted from urinary sediments. We could demonstrate that NMD does not fully function in kidney cells and that haploinsufficiency due to NMD with premature termination is not sufficient to give rise to the PHA1 phenotype at least in this mutation of our patient. Additional studies including mRNA analysis will be needed to identify the exact mechanism of the phenotype of PHA.

  3. Features of 5'-splice-site efficiency derived from disease-causing mutations and comparative genomics

    DEFF Research Database (Denmark)

    Roca, Xavier; Olson, Andrew J; Rao, Atmakuri R

    2008-01-01

    Many human diseases, including Fanconi anemia, hemophilia B, neurofibromatosis, and phenylketonuria, can be caused by 5'-splice-site (5'ss) mutations that are not predicted to disrupt splicing, according to position weight matrices. By using comparative genomics, we identify pairwise dependencies...

  4. Ab initio prediction of mutation-induced cryptic splice-site activation and exon skipping

    Czech Academy of Sciences Publication Activity Database

    Divina, Petr; Kvitkovicova, Andrea; Buratti, E.; Vorechovsky, I.

    2009-01-01

    Roč. 17, č. 6 (2009), s. 759-765 ISSN 1018-4813 Institutional research plan: CEZ:AV0Z50520514 Keywords : mutation * cryptic splice site * exon skipping Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 3.564, year: 2009

  5. Splice site prediction in Arabidopsis thaliana pre-mRNA by combining local and global sequence information

    DEFF Research Database (Denmark)

    Hebsgaard, Stefan M.; Korning, Peter G.; Tolstrup, Niels

    1996-01-01

    Artificial neural networks have been combined with a rule based system to predict intron splice sites in the dicot plant Arabidopsis thaliana. A two step prediction scheme, where a global prediction of the coding potential regulates a cutoff level for a local predicition of splice sites, is refin...

  6. OCA2 splice site variant in German Spitz dogs with oculocutaneous albinism.

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    Madleina Caduff

    Full Text Available We investigated a German Spitz family where the mating of a black male to a white female had yielded three puppies with an unexpected light brown coat color, lightly pigmented lips and noses, and blue eyes. Combined linkage and homozygosity analysis based on a fully penetrant monogenic autosomal recessive mode of inheritance identified a critical interval of 15 Mb on chromosome 3. We obtained whole genome sequence data from one affected dog, three wolves, and 188 control dogs. Filtering for private variants revealed a single variant with predicted high impact in the critical interval in LOC100855460 (XM_005618224.1:c.377+2T>G LT844587.1:c.-45+2T>G. The variant perfectly co-segregated with the phenotype in the family. We genotyped 181 control dogs with normal pigmentation from diverse breeds including 22 unrelated German Spitz dogs, which were all homozygous wildtype. Comparative sequence analyses revealed that LOC100855460 actually represents the 5'-end of the canine OCA2 gene. The CanFam 3.1 reference genome assembly is incorrect and separates the first two exons from the remaining exons of the OCA2 gene. We amplified a canine OCA2 cDNA fragment by RT-PCR and determined the correct full-length mRNA sequence (LT844587.1. Variants in the OCA2 gene cause oculocutaneous albinism type 2 (OCA2 in humans, pink-eyed dilution in mice, and similar phenotypes in corn snakes, medaka and Mexican cave tetra fish. We therefore conclude that the observed oculocutaneous albinism in German Spitz is most likely caused by the identified variant in the 5'-splice site of the first intron of the canine OCA2 gene.

  7. OCA2 splice site variant in German Spitz dogs with oculocutaneous albinism.

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    Caduff, Madleina; Bauer, Anina; Jagannathan, Vidhya; Leeb, Tosso

    2017-01-01

    We investigated a German Spitz family where the mating of a black male to a white female had yielded three puppies with an unexpected light brown coat color, lightly pigmented lips and noses, and blue eyes. Combined linkage and homozygosity analysis based on a fully penetrant monogenic autosomal recessive mode of inheritance identified a critical interval of 15 Mb on chromosome 3. We obtained whole genome sequence data from one affected dog, three wolves, and 188 control dogs. Filtering for private variants revealed a single variant with predicted high impact in the critical interval in LOC100855460 (XM_005618224.1:c.377+2T>G LT844587.1:c.-45+2T>G). The variant perfectly co-segregated with the phenotype in the family. We genotyped 181 control dogs with normal pigmentation from diverse breeds including 22 unrelated German Spitz dogs, which were all homozygous wildtype. Comparative sequence analyses revealed that LOC100855460 actually represents the 5'-end of the canine OCA2 gene. The CanFam 3.1 reference genome assembly is incorrect and separates the first two exons from the remaining exons of the OCA2 gene. We amplified a canine OCA2 cDNA fragment by RT-PCR and determined the correct full-length mRNA sequence (LT844587.1). Variants in the OCA2 gene cause oculocutaneous albinism type 2 (OCA2) in humans, pink-eyed dilution in mice, and similar phenotypes in corn snakes, medaka and Mexican cave tetra fish. We therefore conclude that the observed oculocutaneous albinism in German Spitz is most likely caused by the identified variant in the 5'-splice site of the first intron of the canine OCA2 gene.

  8. New splice site acceptor mutation in AIRE gene in autoimmune polyendocrine syndrome type 1.

    Directory of Open Access Journals (Sweden)

    Mireia Mora

    Full Text Available Autoimmune polyglandular syndrome type 1 (APS-1, OMIM 240300 is a rare autosomal recessive disorder, characterized by the presence of at least two of three major diseases: hypoparathyroidism, Addison's disease, and chronic mucocutaneous candidiasis. We aim to identify the molecular defects and investigate the clinical and mutational characteristics in an index case and other members of a consanguineous family. We identified a novel homozygous mutation in the splice site acceptor (SSA of intron 5 (c.653-1G>A in two siblings with different clinical outcomes of APS-1. Coding DNA sequencing revealed that this AIRE mutation potentially compromised the recognition of the constitutive SSA of intron 5, splicing upstream onto a nearby cryptic SSA in intron 5. Surprisingly, the use of an alternative SSA entails the uncovering of a cryptic donor splice site in exon 5. This new transcript generates a truncated protein (p.A214fs67X containing the first 213 amino acids and followed by 68 aberrant amino acids. The mutation affects the proper splicing, not only at the acceptor but also at the donor splice site, highlighting the complexity of recognizing suitable splicing sites and the importance of sequencing the intron-exon junctions for a more precise molecular diagnosis and correct genetic counseling. As both siblings were carrying the same mutation but exhibited a different APS-1 onset, and one of the brothers was not clinically diagnosed, our finding highlights the possibility to suspect mutations in the AIRE gene in cases of childhood chronic candidiasis and/or hypoparathyroidism otherwise unexplained, especially when the phenotype is associated with other autoimmune diseases.

  9. Modulation of 5' splice site selection using tailed oligonucleotides carrying splicing signals

    Directory of Open Access Journals (Sweden)

    Elela Sherif

    2006-01-01

    Full Text Available Abstract Background We previously described the use of tailed oligonucleotides as a means of reprogramming alternative pre-mRNA splicing in vitro and in vivo. The tailed oligonucleotides that were used interfere with splicing because they contain a portion complementary to sequences immediately upstream of the target 5' splice site combined with a non-hybridizing 5' tail carrying binding sites for the hnRNP A1/A2 proteins. In the present study, we have tested the inhibitory activity of RNA oligonucleotides carrying different tail structures. Results We show that an oligonucleotide with a 5' tail containing the human β-globin branch site sequence inhibits the use of the 5' splice site of Bcl-xL, albeit less efficiently than a tail containing binding sites for the hnRNP A1/A2 proteins. A branch site-containing tail positioned at the 3' end of the oligonucleotide also elicited splicing inhibition but not as efficiently as a 5' tail. The interfering activity of a 3' tail was improved by adding a 5' splice site sequence next to the branch site sequence. A 3' tail carrying a Y-shaped branch structure promoted similar splicing interference. The inclusion of branch site or 5' splice site sequences in the Y-shaped 3' tail further improved splicing inhibition. Conclusion Our in vitro results indicate that a variety of tail architectures can be used to elicit splicing interference at low nanomolar concentrations, thereby broadening the scope and the potential impact of this antisense technology.

  10. U2AF1 mutations alter splice site recognition in hematological malignancies.

    Science.gov (United States)

    Ilagan, Janine O; Ramakrishnan, Aravind; Hayes, Brian; Murphy, Michele E; Zebari, Ahmad S; Bradley, Philip; Bradley, Robert K

    2015-01-01

    Whole-exome sequencing studies have identified common mutations affecting genes encoding components of the RNA splicing machinery in hematological malignancies. Here, we sought to determine how mutations affecting the 3' splice site recognition factor U2AF1 alter its normal role in RNA splicing. We find that U2AF1 mutations influence the similarity of splicing programs in leukemias, but do not give rise to widespread splicing failure. U2AF1 mutations cause differential splicing of hundreds of genes, affecting biological pathways such as DNA methylation (DNMT3B), X chromosome inactivation (H2AFY), the DNA damage response (ATR, FANCA), and apoptosis (CASP8). We show that U2AF1 mutations alter the preferred 3' splice site motif in patients, in cell culture, and in vitro. Mutations affecting the first and second zinc fingers give rise to different alterations in splice site preference and largely distinct downstream splicing programs. These allele-specific effects are consistent with a computationally predicted model of U2AF1 in complex with RNA. Our findings suggest that U2AF1 mutations contribute to pathogenesis by causing quantitative changes in splicing that affect diverse cellular pathways, and give insight into the normal function of U2AF1's zinc finger domains. © 2015 Ilagan et al.; Published by Cold Spring Harbor Laboratory Press.

  11. The Human Splicing Factor ASF/SF2 can Specifically Recognize Pre-mRNA 5' Splice Sites

    Science.gov (United States)

    Zuo, Ping; Manley, James L.

    1994-04-01

    ASF/SF2 is a human protein previously shown to function in in vitro pre-mRNA splicing as an essential factor necessary for all splices and also as an alternative splicing factor, capable of switching selection of 5' splice sites. To begin to study the protein's mechanism of action, we have investigated the RNA binding properties of purified recombinant ASF/SF2. Using UV crosslinking and gel shift assays, we demonstrate that the RNA binding region of ASF/SF2 can interact with RNA in a sequence-specific manner, recognizing the 5' splice site in each of two different pre-mRNAs. Point mutations in the 5' splice site consensus can reduce binding by as much as a factor of 100, with the largest effects observed in competition assays. These findings support a model in which ASF/SF2 aids in the recognition of pre-mRNA 5' splice sites.

  12. Novel BRCA1 splice-site mutation in ovarian cancer patients of Slavic origin.

    Science.gov (United States)

    Krivokuca, Ana; Dragos, Vita Setrajcic; Stamatovic, Ljiljana; Blatnik, Ana; Boljevic, Ivana; Stegel, Vida; Rakobradovic, Jelena; Skerl, Petra; Jovandic, Stevo; Krajc, Mateja; Magic, Mirjana Brankovic; Novakovic, Srdjan

    2018-04-01

    Mutations in breast cancer susceptibility gene 1 (BRCA1) lead to defects in a number of cellular pathways including DNA damage repair and transcriptional regulation, resulting in the elevated genome instability and predisposing to breast and ovarian cancers. We report a novel mutation LRG_292t1:c.4356delA,p.(Ala1453Glnfs*3) in the 12th exon of BRCA1, in the splice site region near the donor site of intron 12. It is a frameshift mutation with the termination codon generated on the third amino acid position from the site of deletion. Human Splice Finder 3.0 and MutationTaster have assessed this variation as disease causing, based on the alteration of splicing, creation of premature stop codon and other potential alterations initiated by nucleotide deletion. Among the most important alterations are frameshift and splice site changes (score of the newly created donor splice site: 0.82). c.4356delA was associated with two ovarian cancer cases in two families of Slavic origin. It was detected by next generation sequencing, and confirmed with Sanger sequencing in both cases. Because of the fact that it changes the reading frame of the protein, novel mutation c.4356delA p.(Ala1453Glnfs*3) in BRCA1 gene might be of clinical significance for hereditary ovarian cancer. Further functional as well as segregation analyses within the families are necessary for appropriate clinical classification of this variant. Since it has been detected in two ovarian cancer patients of Slavic origin, it is worth investigating founder effect of this mutation in Slavic populations.

  13. A novel splice-site mutation in ALS2 establishes the diagnosis of juvenile amyotrophic lateral sclerosis in a family with early onset anarthria and generalized dystonias.

    Directory of Open Access Journals (Sweden)

    Saima Siddiqi

    Full Text Available The diagnosis of childhood neurological disorders remains challenging given the overlapping clinical presentation across subgroups and heterogeneous presentation within subgroups. To determine the underlying genetic cause of a severe neurological disorder in a large consanguineous Pakistani family presenting with severe scoliosis, anarthria and progressive neuromuscular degeneration, we performed genome-wide homozygosity mapping accompanied by whole-exome sequencing in two affected first cousins and their unaffected parents to find the causative mutation. We identified a novel homozygous splice-site mutation (c.3512+1G>A in the ALS2 gene (NM_020919.3 encoding alsin that segregated with the disease in this family. Homozygous loss-of-function mutations in ALS2 are known to cause juvenile-onset amyotrophic lateral sclerosis (ALS, one of the many neurological conditions having overlapping symptoms with many neurological phenotypes. RT-PCR validation revealed that the mutation resulted in exon-skipping as well as the use of an alternative donor splice, both of which are predicted to cause loss-of-function of the resulting proteins. By examining 216 known neurological disease genes in our exome sequencing data, we also identified 9 other rare nonsynonymous mutations in these genes, some of which lie in highly conserved regions. Sequencing of a single proband might have led to mis-identification of some of these as the causative variant. Our findings established a firm diagnosis of juvenile ALS in this family, thus demonstrating the use of whole exome sequencing combined with linkage analysis in families as a powerful tool for establishing a quick and precise genetic diagnosis of complex neurological phenotypes.

  14. A homozygote splice site PMS2 mutation as cause of Turcot syndrome gives rise to two different abnormal transcripts.

    Science.gov (United States)

    Sjursen, Wenche; Bjørnevoll, Inga; Engebretsen, Lars F; Fjelland, Kristine; Halvorsen, Tore; Myrvold, Helge E

    2009-01-01

    Turcot syndrome is a rare, inherited disease predisposing of tumours in the central nerve system and in the colorectal system. This report describes a Turcot patient with an extraordinary clinical history. The patient is still alive at the age of 43. She was operated at the age of 10 by brain tumour and at the age of 16 by colorectal cancer. She has since then been treated for multiple cancers (gastrointestinal, endometrial, basal cell carcinomas), and removal of adenomatous polyps at several occasions. The aim of this work was to investigate if there was any specific genotype that explains her remarkable clinical history. Microsatellite instability and immunohistochemistry analysis for four DNA mismatch repair proteins were performed. DNA mutation analysis was done for genes involved in polyposis and mismatch repair by denaturing high performance liquid chromatography and sequencing. cDNA analysis was carried out for the mismatch repair gene PMS2. The patients genotype was found to be a homozygous splice site mutation in the PMS2 gene, c.989-1Ganalysis showed that the homozygous mutation led to two abnormal transcripts, of which one is perhaps less detrimental. Thus cDNA analysis is of prime importance for the full evaluation of the effect of putative splicing mutations.

  15. Splice site mutations in mismatch repair genes and risk of cancer in the general population

    DEFF Research Database (Denmark)

    Thomsen, Mette; Nordestgaard, Børge G; Tybjærg-Hansen, Anne

    2013-01-01

    We tested the hypothesis that splice site variations in MSH2 and MLH1 are associated with increased risk of hereditary non-polyposis colorectal cancer (HNPCC) and of cancer in general in the general population. In a cohort of 154 HNPCC patients with sequenced MSH2 and MLH1, we identified four...... possible splice-site mutations, which we subsequently genotyped in more than 9,000 individuals from the general population. Allele frequencies in the general population were 0 % for 942+3A>T in MSH2, 0.05 % for 307-19A>G, 0.005 % for 1,667+(2-8)del(taaatca);ins(attt), and 4.4 % for 1039-8T>A in MLH1. Odds...... ratios for HNPCC in a case-control design were 419 (95 % CI: 53-18,900) for 942+3A>T in MSH2, 19 (5-72) for 307-19A>G, 194 (21-1,768) for 1,667+(2-8)del(taaatca); ins(attt), and 0.3 (0.1-0.7) for 1,039-8T>A in MLH1. In the general population, incidence rate ratios for 1,039-8T>A carriers versus...

  16. Feature selection for splice site prediction: A new method using EDA-based feature ranking

    Directory of Open Access Journals (Sweden)

    Rouzé Pierre

    2004-05-01

    Full Text Available Abstract Background The identification of relevant biological features in large and complex datasets is an important step towards gaining insight in the processes underlying the data. Other advantages of feature selection include the ability of the classification system to attain good or even better solutions using a restricted subset of features, and a faster classification. Thus, robust methods for fast feature selection are of key importance in extracting knowledge from complex biological data. Results In this paper we present a novel method for feature subset selection applied to splice site prediction, based on estimation of distribution algorithms, a more general framework of genetic algorithms. From the estimated distribution of the algorithm, a feature ranking is derived. Afterwards this ranking is used to iteratively discard features. We apply this technique to the problem of splice site prediction, and show how it can be used to gain insight into the underlying biological process of splicing. Conclusion We show that this technique proves to be more robust than the traditional use of estimation of distribution algorithms for feature selection: instead of returning a single best subset of features (as they normally do this method provides a dynamical view of the feature selection process, like the traditional sequential wrapper methods. However, the method is faster than the traditional techniques, and scales better to datasets described by a large number of features.

  17. Computational Recognition of RNA Splice Sites by Exact Algorithms for the Quadratic Traveling Salesman Problem

    Directory of Open Access Journals (Sweden)

    Anja Fischer

    2015-06-01

    Full Text Available One fundamental problem of bioinformatics is the computational recognition of DNA and RNA binding sites. Given a set of short DNA or RNA sequences of equal length such as transcription factor binding sites or RNA splice sites, the task is to learn a pattern from this set that allows the recognition of similar sites in another set of DNA or RNA sequences. Permuted Markov (PM models and permuted variable length Markov (PVLM models are two powerful models for this task, but the problem of finding an optimal PM model or PVLM model is NP-hard. While the problem of finding an optimal PM model or PVLM model of order one is equivalent to the traveling salesman problem (TSP, the problem of finding an optimal PM model or PVLM model of order two is equivalent to the quadratic TSP (QTSP. Several exact algorithms exist for solving the QTSP, but it is unclear if these algorithms are capable of solving QTSP instances resulting from RNA splice sites of at least 150 base pairs in a reasonable time frame. Here, we investigate the performance of three exact algorithms for solving the QTSP for ten datasets of splice acceptor sites and splice donor sites of five different species and find that one of these algorithms is capable of solving QTSP instances of up to 200 base pairs with a running time of less than two days.

  18. A splice site mutation in a gene encoding for PDK4, a mitochondrial protein, is associated with the development of dilated cardiomyopathy in the Doberman pinscher.

    Science.gov (United States)

    Meurs, Kathryn M; Lahmers, Sunshine; Keene, Bruce W; White, Stephen N; Oyama, Mark A; Mauceli, Evan; Lindblad-Toh, Kerstin

    2012-08-01

    Familial dilated cardiomyopathy is a primary myocardial disease that can result in the development of congestive heart failure and sudden cardiac death. Spontaneous animal models of familial dilated cardiomyopathy exist and the Doberman pinscher dog is one of the most commonly reported canine breeds. The objective of this study was to evaluate familial dilated cardiomyopathy in the Doberman pinscher dog using a genome-wide association study for a genetic alteration(s) associated with the development of this disease in this canine model. Genome-wide association analysis identified an area of statistical significance on canine chromosome 14 (p(raw) = 9.999e-05 corrected for genome-wide significance), fine-mapping of additional SNPs flanking this region localized a signal to 23,774,190-23,781,919 (p = 0.001) and DNA sequencing identified a 16-base pair deletion in the 5' donor splice site of intron 10 of the pyruvate dehydrogenase kinase 4 gene in affected dogs (p dilation, marked pleomorphic mitochondrial alterations with megamitochondria, scattered mitochondria with whorling and vacuolization and mild aggregates of lipofuscin granules. In conclusion, we report the identification of a splice site deletion in the PDK4 gene that is associated with the development of familial dilated cardiomyopathy in the Doberman pinscher dog.

  19. Permanent Neonatal Diabetes Caused by Creation of an Ectopic Splice Site within the INS Gene

    Science.gov (United States)

    Gastaldo, Elena; Harries, Lorna W.; Rubio-Cabezas, Oscar; Castaño, Luis

    2012-01-01

    Background The aim of this study was to characterize the genetic etiology in a patient who presented with permanent neonatal diabetes at 2 months of age. Methodology/Principal Findings Regulatory elements and coding exons 2 and 3 of the INS gene were amplified and sequenced from genomic and complementary DNA samples. A novel heterozygous INS mutation within the terminal intron of the gene was identified in the proband and her affected father. This mutation introduces an ectopic splice site leading to the insertion of 29 nucleotides from the intronic sequence into the mature mRNA, which results in a longer and abnormal transcript. Conclusions/Significance This study highlights the importance of routinely sequencing the exon-intron boundaries and the need to carry out additional studies to confirm the pathogenicity of any identified intronic genetic variants. PMID:22235272

  20. Human-specific protein isoforms produced by novel splice sites in the human genome after the human-chimpanzee divergence

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    Kim Dong Seon

    2012-11-01

    Full Text Available Abstract Background Evolution of splice sites is a well-known phenomenon that results in transcript diversity during human evolution. Many novel splice sites are derived from repetitive elements and may not contribute to protein products. Here, we analyzed annotated human protein-coding exons and identified human-specific splice sites that arose after the human-chimpanzee divergence. Results We analyzed multiple alignments of the annotated human protein-coding exons and their respective orthologous mammalian genome sequences to identify 85 novel splice sites (50 splice acceptors and 35 donors in the human genome. The novel protein-coding exons, which are expressed either constitutively or alternatively, produce novel protein isoforms by insertion, deletion, or frameshift. We found three cases in which the human-specific isoform conferred novel molecular function in the human cells: the human-specific IMUP protein isoform induces apoptosis of the trophoblast and is implicated in pre-eclampsia; the intronization of a part of SMOX gene exon produces inactive spermine oxidase; the human-specific NUB1 isoform shows reduced interaction with ubiquitin-like proteins, possibly affecting ubiquitin pathways. Conclusions Although the generation of novel protein isoforms does not equate to adaptive evolution, we propose that these cases are useful candidates for a molecular functional study to identify proteomic changes that might bring about novel phenotypes during human evolution.

  1. Novel splice site mutation in the growth hormone receptor gene in Turkish patients with Laron-type dwarfism.

    Science.gov (United States)

    Arman, Ahmet; Ozon, Alev; Isguven, Pinar S; Coker, Ajda; Peker, Ismail; Yordam, Nursen

    2008-01-01

    Growth hormone (GH) is involved in growth, and fat and carbohydrate metabolism. Interaction of GH with the GH receptor (GHR) is necessary for systemic and local production of insulin-like growth factor-I (IGF-I) which mediates GH actions. Mutations in the GHR cause severe postnatal growth failure; the disorder is an autosomal recessive genetic disease resulting in GH insensitivity, called Laron syndrome. It is characterized by dwarfism with elevated serum GH and low levels of IGF-I. We analyzed the GHR gene for mutations and polymorphisms in eight patients with Laron-type dwarfism from six families. We found three missense mutations (S40L, V125A, I526L), one nonsense mutation (W157X), and one splice site mutation in the extracellular domain of GHR. Furthermore, G168G and exon 3 deletion polymorphisms were detected in patients with Laron syndrome. The splice site mutation, which is a novel mutation, was located at the donor splice site of exon 2/ intron 2 within GHR. Although this mutation changed the highly conserved donor splice site consensus sequence GT to GGT by insertion of a G residue, the intron splicing between exon 2 and exon 3 was detected in the patient. These results imply that the splicing occurs arthe GT site in intron 2, leaving the extra inserted G residue at the end of exon 2, thus changing the open reading frame of GHR resulting in a premature termination codon in exon 3.

  2. Novel compound heterozygous Thyroglobulin mutations c.745+1G>A/c.7036+2T>A associated with congenital goiter and hypothyroidism in a Vietnamese family. Identification of a new cryptic 5' splice site in the exon 6.

    Science.gov (United States)

    Citterio, Cintia E; Morales, Cecilia M; Bouhours-Nouet, Natacha; Machiavelli, Gloria A; Bueno, Elena; Gatelais, Frédérique; Coutant, Regis; González-Sarmiento, Rogelio; Rivolta, Carina M; Targovnik, Héctor M

    2015-03-15

    Several patients were identified with dyshormonogenesis caused by mutations in the thyroglobulin (TG) gene. These defects are inherited in an autosomal recessive manner and affected individuals are either homozygous or compound heterozygous for the mutations. The aim of the present study was to identify new TG mutations in a patient of Vietnamese origin affected by congenital hypothyroidism, goiter and low levels of serum TG. DNA sequencing identified the presence of compound heterozygous mutations in the TG gene: the maternal mutation consists of a novel c.745+1G>A (g.IVS6 + 1G>A), whereas the hypothetical paternal mutation consists of a novel c.7036+2T>A (g.IVS40 + 2T>A). The father was not available for segregation analysis. Ex-vivo splicing assays and subsequent RT-PCR analyses were performed on mRNA isolated from the eukaryotic-cells transfected with normal and mutant expression vectors. Minigene analysis of the c.745+1G>A mutant showed that the exon 6 is skipped during pre-mRNA splicing or partially included by use of a cryptic 5' splice site located to 55 nucleotides upstream of the authentic exon 6/intron 6 junction site. The functional analysis of c.7036+2T>A mutation showed a complete skipping of exon 40. The theoretical consequences of splice site mutations, predicted with the bioinformatics tool NNSplice, Fsplice, SPL, SPLM and MaxEntScan programs were investigated and evaluated in relation with the experimental evidence. These analyses predicted that both mutant alleles would result in the abolition of the authentic splice donor sites. The c.745+1G>A mutation originates two putative truncated proteins of 200 and 1142 amino acids, whereas c.7036+2T>A mutation results in a putative truncated protein of 2277 amino acids. In conclusion, we show that the c.745+1G>A mutation promotes the activation of a new cryptic donor splice site in the exon 6 of the TG gene. The functional consequences of these mutations could be structural changes in the protein

  3. An empirical study of ensemble-based semi-supervised learning approaches for imbalanced splice site datasets.

    Science.gov (United States)

    Stanescu, Ana; Caragea, Doina

    2015-01-01

    Recent biochemical advances have led to inexpensive, time-efficient production of massive volumes of raw genomic data. Traditional machine learning approaches to genome annotation typically rely on large amounts of labeled data. The process of labeling data can be expensive, as it requires domain knowledge and expert involvement. Semi-supervised learning approaches that can make use of unlabeled data, in addition to small amounts of labeled data, can help reduce the costs associated with labeling. In this context, we focus on the problem of predicting splice sites in a genome using semi-supervised learning approaches. This is a challenging problem, due to the highly imbalanced distribution of the data, i.e., small number of splice sites as compared to the number of non-splice sites. To address this challenge, we propose to use ensembles of semi-supervised classifiers, specifically self-training and co-training classifiers. Our experiments on five highly imbalanced splice site datasets, with positive to negative ratios of 1-to-99, showed that the ensemble-based semi-supervised approaches represent a good choice, even when the amount of labeled data consists of less than 1% of all training data. In particular, we found that ensembles of co-training and self-training classifiers that dynamically balance the set of labeled instances during the semi-supervised iterations show improvements over the corresponding supervised ensemble baselines. In the presence of limited amounts of labeled data, ensemble-based semi-supervised approaches can successfully leverage the unlabeled data to enhance supervised ensembles learned from highly imbalanced data distributions. Given that such distributions are common for many biological sequence classification problems, our work can be seen as a stepping stone towards more sophisticated ensemble-based approaches to biological sequence annotation in a semi-supervised framework.

  4. Effects of secondary structure on pre-mRNA splicing: hairpins sequestering the 5' but not the 3' splice site inhibit intron processing in Nicotiana plumbaginifolia.

    Science.gov (United States)

    Liu, H X; Goodall, G J; Kole, R; Filipowicz, W

    1995-01-16

    We have performed a systematic study of the effect of artificial hairpins on pre-mRNA splicing in protoplasts of a dicot plant, Nicotiana plumbaginifolia. Hairpins with a potential to form 18 or 24 bp stems strongly inhibit splicing when they sequester the 5' splice site or are placed in the middle of short introns. However, similar 24 bp hairpins sequestering the 3' splice site do not prevent this site from being used as an acceptor. Utilization of the stem-located 3' site requires that the base of the stem is separated from the upstream 5' splice site by a minimum of approximately 45 nucleotides and that another 'helper' 3' splice site is present downstream of the stem. The results indicate that the spliceosome or factors associated with it may have a potential to unfold secondary structure present in the downstream portion of the intron, prior to or at the step of the 3' splice site selection. The finding that the helper 3' site is required for utilization of the stem-located acceptor confirms and extends previous observations, obtained with HeLa cell in vitro splicing systems, indicating that the 3' splice site may be recognized at least twice during spliceosome assembly.

  5. Physics analysis tools

    International Nuclear Information System (INIS)

    Kunz, P.F.

    1991-04-01

    There are many tools used in analysis in High Energy Physics (HEP). They range from low level tools such as a programming language to high level such as a detector simulation package. This paper will discuss some aspects of these tools that are directly associated with the process of analyzing HEP data. Physics analysis tools cover the whole range from the simulation of the interactions of particles to the display and fitting of statistical data. For purposes of this paper, the stages of analysis is broken down to five main stages. The categories are also classified as areas of generation, reconstruction, and analysis. Different detector groups use different terms for these stages thus it is useful to define what is meant by them in this paper. The particle generation stage is a simulation of the initial interaction, the production of particles, and the decay of the short lived particles. The detector simulation stage simulates the behavior of an event in a detector. The track reconstruction stage does pattern recognition on the measured or simulated space points, calorimeter information, etc., and reconstructs track segments of the original event. The event reconstruction stage takes the reconstructed tracks, along with particle identification information and assigns masses to produce 4-vectors. Finally the display and fit stage displays statistical data accumulated in the preceding stages in the form of histograms, scatter plots, etc. The remainder of this paper will consider what analysis tools are available today, and what one might expect in the future. In each stage, the integration of the tools with other stages and the portability of the tool will be analyzed

  6. Factor IX[sub Madrid 2]: A deletion/insertion in Facotr IX gene which abolishes the sequence of the donor junction at the exon IV-intron d splice site

    Energy Technology Data Exchange (ETDEWEB)

    Solera, J. (Unidades de Genetica Molecular, Madrid (Spain)); Magallon, M.; Martin-Villar, J. (Hemofilia Hospital, Madrid (Spain)); Coloma, A. (Departamento deBioquimica de la Facultad de Medicina de la Universidad Autonoma, Madrid (Spain))

    1992-02-01

    DNA from a patient with severe hemophilia B was evaluated by RFLP analysis, producing results which suggested the existence of a partial deletion within the factor IX gene. The deletion was further localized and characterized by PCR amplification and sequencing. The altered allele has a 4,442-bp deletion which removes both the donor splice site located at the 5[prime] end of intron d and the two last coding nucleotides located at the 3[prime] end of exon IV in the normal factor IX gene; this fragment has been inserted in inverted orientation. Two homologous sequences have been discovered at the ends of the deleted DNA fragment.

  7. BAP1 missense mutation c.2054 A>T (p.E685V completely disrupts normal splicing through creation of a novel 5' splice site in a human mesothelioma cell line.

    Directory of Open Access Journals (Sweden)

    Arianne Morrison

    Full Text Available BAP1 is a tumor suppressor gene that is lost or deleted in diverse cancers, including uveal mela¬noma, malignant pleural mesothelioma (MPM, clear cell renal carcinoma, and cholangiocarcinoma. Recently, BAP1 germline mutations have been reported in families with combinations of these same cancers. A particular challenge for mutation screening is the classification of non-truncating BAP1 sequence variants because it is not known whether these subtle changes can affect the protein function sufficiently to predispose to cancer development. Here we report mRNA splicing analysis on a homozygous substitution mutation, BAP1 c. 2054 A&T (p.Glu685Val, identified in an MPM cell line derived from a mesothelioma patient. The mutation occurred at the 3rd nucleotide from the 3' end of exon 16. RT-PCR, cloning and subsequent sequencing revealed several aberrant splicing products not observed in the controls: 1 a 4 bp deletion at the end of exon 16 in all clones derived from the major splicing product. The BAP1 c. 2054 A&T mutation introduced a new 5' splice site (GU, which resulted in the deletion of 4 base pairs and presumably protein truncation; 2 a variety of alternative splicing products that led to retention of different introns: introns 14-16; introns 15-16; intron 14 and intron 16; 3 partial intron 14 and 15 retentions caused by activation of alternative 3' splice acceptor sites (AG in the introns. Taken together, we were unable to detect any correctly spliced mRNA transcripts in this cell line. These results suggest that aberrant splicing caused by this mutation is quite efficient as it completely abolishes normal splicing through creation of a novel 5' splice site and activation of cryptic splice sites. These data support the conclusion that BAP1 c.2054 A&T (p.E685V variant is a pathogenic mutation and contributes to MPM through disruption of normal splicing.

  8. Building energy analysis tool

    Science.gov (United States)

    Brackney, Larry; Parker, Andrew; Long, Nicholas; Metzger, Ian; Dean, Jesse; Lisell, Lars

    2016-04-12

    A building energy analysis system includes a building component library configured to store a plurality of building components, a modeling tool configured to access the building component library and create a building model of a building under analysis using building spatial data and using selected building components of the plurality of building components stored in the building component library, a building analysis engine configured to operate the building model and generate a baseline energy model of the building under analysis and further configured to apply one or more energy conservation measures to the baseline energy model in order to generate one or more corresponding optimized energy models, and a recommendation tool configured to assess the one or more optimized energy models against the baseline energy model and generate recommendations for substitute building components or modifications.

  9. Extended Testability Analysis Tool

    Science.gov (United States)

    Melcher, Kevin; Maul, William A.; Fulton, Christopher

    2012-01-01

    The Extended Testability Analysis (ETA) Tool is a software application that supports fault management (FM) by performing testability analyses on the fault propagation model of a given system. Fault management includes the prevention of faults through robust design margins and quality assurance methods, or the mitigation of system failures. Fault management requires an understanding of the system design and operation, potential failure mechanisms within the system, and the propagation of those potential failures through the system. The purpose of the ETA Tool software is to process the testability analysis results from a commercial software program called TEAMS Designer in order to provide a detailed set of diagnostic assessment reports. The ETA Tool is a command-line process with several user-selectable report output options. The ETA Tool also extends the COTS testability analysis and enables variation studies with sensor sensitivity impacts on system diagnostics and component isolation using a single testability output. The ETA Tool can also provide extended analyses from a single set of testability output files. The following analysis reports are available to the user: (1) the Detectability Report provides a breakdown of how each tested failure mode was detected, (2) the Test Utilization Report identifies all the failure modes that each test detects, (3) the Failure Mode Isolation Report demonstrates the system s ability to discriminate between failure modes, (4) the Component Isolation Report demonstrates the system s ability to discriminate between failure modes relative to the components containing the failure modes, (5) the Sensor Sensor Sensitivity Analysis Report shows the diagnostic impact due to loss of sensor information, and (6) the Effect Mapping Report identifies failure modes that result in specified system-level effects.

  10. A splice site mutation in laminin-α2 results in a severe muscular dystrophy and growth abnormalities in zebrafish.

    Directory of Open Access Journals (Sweden)

    Vandana A Gupta

    Full Text Available Congenital muscular dystrophy (CMD is a clinically and genetically heterogeneous group of inherited muscle disorders. In patients, muscle weakness is usually present at or shortly after birth and is progressive in nature. Merosin deficient congenital muscular dystrophy (MDC1A is a form of CMD caused by a defect in the laminin-α2 gene (LAMA2. Laminin-α2 is an extracellular matrix protein that interacts with the dystrophin-dystroglycan (DGC complex in membranes providing stability to muscle fibers. In an N-ethyl-N-nitrosourea mutagenesis screen to develop zebrafish models of neuromuscular diseases, we identified a mutant fish that exhibits severe muscular dystrophy early in development. Genetic mapping identified a splice site mutation in the lama2 gene. This splice site is highly conserved in humans and this mutation results in mis-splicing of RNA and a loss of protein function. Homozygous lama2 mutant zebrafish, designated lama2(cl501/cl501, exhibited reduced motor function and progressive degeneration of skeletal muscles and died at 8-15 days post fertilization. The skeletal muscles exhibited damaged myosepta and detachment of myofibers in the affected fish. Laminin-α2 deficiency also resulted in growth defects in the brain and eye of the mutant fish. This laminin-α2 deficient mutant fish represents a novel disease model to develop therapies for modulating splicing defects in congenital muscular dystrophies and to restore the muscle function in human patients with CMD.

  11. Contamination Analysis Tools

    Science.gov (United States)

    Brieda, Lubos

    2015-01-01

    This talk presents 3 different tools developed recently for contamination analysis:HTML QCM analyzer: runs in a web browser, and allows for data analysis of QCM log filesJava RGA extractor: can load in multiple SRS.ana files and extract pressure vs. time dataC++ Contamination Simulation code: 3D particle tracing code for modeling transport of dust particulates and molecules. Uses residence time to determine if molecules stick. Particulates can be sampled from IEST-STD-1246 and be accelerated by aerodynamic forces.

  12. A novel T→G splice site mutation of CRYBA1/A3 associated with autosomal dominant nuclear cataracts in a Chinese family.

    Science.gov (United States)

    Yang, Zhenfei; Su, Dongmei; Li, Qian; Yang, Fan; Ma, Zicheng; Zhu, Siquan; Ma, Xu

    2012-01-01

    The purpose of this study was to identify the disease-causing mutation and the molecular phenotype that are responsible for the presence of an autosomal dominant congenital nuclear cataract disease in a Chinese family. The family history and clinical data were recorded. The patients were given a physical examination and their blood samples were collected for DNA extraction. Direct sequencing was used to detect the mutation. Transcription analysis of the mutant crystallin, beta A1 (CRYBA1/A3) gene was performed to verify whether the defective mutation had influenced the splice of the mature mRNA. The phenotype of the congenital cataract in the family was identified as a nuclear cataract type, by using slit-lamp photography. Direct sequencing revealed a novel mutation IVS3+2 T→G in CRYBA1/A3. This mutation co-segregated with all affected individuals in the family, but was not found in unaffected family members nor in the 100 unrelated controls. Transcription analysis of the mutant CRYBA1/A3 gene indicated that this mutation had influenced the splice of the mature mRNA. Our study identified a novel splice site mutation in CRYBA1/A3. This mutation was responsible for aberrant splicing of the mature mRNA and had caused the congenital nuclear cataracts in the family. This is the first report relating an IVS3+2 T→G mutation of CRYBA1/A3 to congenital cataracts.

  13. Dynamic Contingency Analysis Tool

    Energy Technology Data Exchange (ETDEWEB)

    2016-01-14

    The Dynamic Contingency Analysis Tool (DCAT) is an open-platform and publicly available methodology to help develop applications that aim to improve the capabilities of power system planning engineers to assess the impact and likelihood of extreme contingencies and potential cascading events across their systems and interconnections. Outputs from the DCAT will help find mitigation solutions to reduce the risk of cascading outages in technically sound and effective ways. The current prototype DCAT implementation has been developed as a Python code that accesses the simulation functions of the Siemens PSS/E planning tool (PSS/E). It has the following features: It uses a hybrid dynamic and steady-state approach to simulating the cascading outage sequences that includes fast dynamic and slower steady-state events. It integrates dynamic models with protection scheme models for generation, transmission, and load. It models special protection systems (SPSs)/remedial action schemes (RASs) and automatic and manual corrective actions. Overall, the DCAT attempts to bridge multiple gaps in cascading-outage analysis in a single, unique prototype tool capable of automatically simulating and analyzing cascading sequences in real systems using multiprocessor computers.While the DCAT has been implemented using PSS/E in Phase I of the study, other commercial software packages with similar capabilities can be used within the DCAT framework.

  14. Discovery of candidate disease genes in ENU-induced mouse mutants by large-scale sequencing, including a splice-site mutation in nucleoredoxin.

    Directory of Open Access Journals (Sweden)

    Melissa K Boles

    2009-12-01

    Full Text Available An accurate and precisely annotated genome assembly is a fundamental requirement for functional genomic analysis. Here, the complete DNA sequence and gene annotation of mouse Chromosome 11 was used to test the efficacy of large-scale sequencing for mutation identification. We re-sequenced the 14,000 annotated exons and boundaries from over 900 genes in 41 recessive mutant mouse lines that were isolated in an N-ethyl-N-nitrosourea (ENU mutation screen targeted to mouse Chromosome 11. Fifty-nine sequence variants were identified in 55 genes from 31 mutant lines. 39% of the lesions lie in coding sequences and create primarily missense mutations. The other 61% lie in noncoding regions, many of them in highly conserved sequences. A lesion in the perinatal lethal line l11Jus13 alters a consensus splice site of nucleoredoxin (Nxn, inserting 10 amino acids into the resulting protein. We conclude that point mutations can be accurately and sensitively recovered by large-scale sequencing, and that conserved noncoding regions should be included for disease mutation identification. Only seven of the candidate genes we report have been previously targeted by mutation in mice or rats, showing that despite ongoing efforts to functionally annotate genes in the mammalian genome, an enormous gap remains between phenotype and function. Our data show that the classical positional mapping approach of disease mutation identification can be extended to large target regions using high-throughput sequencing.

  15. Frequency Response Analysis Tool

    Energy Technology Data Exchange (ETDEWEB)

    Etingov, Pavel V. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Kosterev, Dmitry [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Dai, T. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2014-12-01

    Frequency response has received a lot of attention in recent years at the national level, which culminated in the development and approval of North American Electricity Reliability Corporation (NERC) BAL-003-1 Frequency Response and Frequency Bias Setting Reliability Standard. This report is prepared to describe the details of the work conducted by Pacific Northwest National Laboratory (PNNL) in collaboration with the Bonneville Power Administration and Western Electricity Coordinating Council (WECC) Joint Synchronized Information Subcommittee (JSIS) to develop a frequency response analysis tool (FRAT). The document provides the details on the methodology and main features of the FRAT. The tool manages the database of under-frequency events and calculates the frequency response baseline. Frequency response calculations are consistent with frequency response measure (FRM) in NERC BAL-003-1 for an interconnection and balancing authority. The FRAT can use both phasor measurement unit (PMU) data, where available, and supervisory control and data acquisition (SCADA) data. The tool is also capable of automatically generating NERC Frequency Response Survey (FRS) forms required by BAL-003-1 Standard.

  16. Draper Station Analysis Tool

    Science.gov (United States)

    Bedrossian, Nazareth; Jang, Jiann-Woei; McCants, Edward; Omohundro, Zachary; Ring, Tom; Templeton, Jeremy; Zoss, Jeremy; Wallace, Jonathan; Ziegler, Philip

    2011-01-01

    Draper Station Analysis Tool (DSAT) is a computer program, built on commercially available software, for simulating and analyzing complex dynamic systems. Heretofore used in designing and verifying guidance, navigation, and control systems of the International Space Station, DSAT has a modular architecture that lends itself to modification for application to spacecraft or terrestrial systems. DSAT consists of user-interface, data-structures, simulation-generation, analysis, plotting, documentation, and help components. DSAT automates the construction of simulations and the process of analysis. DSAT provides a graphical user interface (GUI), plus a Web-enabled interface, similar to the GUI, that enables a remotely located user to gain access to the full capabilities of DSAT via the Internet and Webbrowser software. Data structures are used to define the GUI, the Web-enabled interface, simulations, and analyses. Three data structures define the type of analysis to be performed: closed-loop simulation, frequency response, and/or stability margins. DSAT can be executed on almost any workstation, desktop, or laptop computer. DSAT provides better than an order of magnitude improvement in cost, schedule, and risk assessment for simulation based design and verification of complex dynamic systems.

  17. Intronic PAH gene mutations cause a splicing defect by a novel mechanism involving U1snRNP binding downstream of the 5' splice site

    DEFF Research Database (Denmark)

    Martínez-Pizarro, Ainhoa; Dembic, Maja; Pérez, Belén

    2018-01-01

    Phenylketonuria (PKU), one of the most common inherited diseases of amino acid metabolism, is caused by mutations in the phenylalanine hydroxylase (PAH) gene. Recently, PAH exon 11 was identified as a vulnerable exon due to a weak 3' splice site, with different exonic mutations affecting exon 11 ...

  18. Clinical, in silico, and experimental evidence for pathogenicity of two novel splice site mutations in the SH3TC2 gene

    Czech Academy of Sciences Publication Activity Database

    Laššuthová, P.; Gregor, Martin; Sarnová, Lenka; Machalová, Eliška; Sedláček, Radislav; Seeman, P.

    2012-01-01

    Roč. 26, 3-4 (2012), s. 413-420 ISSN 0167-7063 R&D Projects: GA ČR GAP303/10/2044 Institutional support: RVO:68378050 Keywords : exon trapping * peripheral neuropathy * SH3TC2 gene * splice site mutation Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 2.159, year: 2012

  19. HIV-1 splicing is controlled by local RNA structure and binding of splicing regulatory proteins at the major 5' splice site

    NARCIS (Netherlands)

    Mueller, Nancy; Berkhout, Ben; Das, Atze T.

    2015-01-01

    The 5' leader region of the human immunodeficiency virus 1 (HIV-1) RNA genome contains the major 5' splice site (ss) that is used in the production of the many spliced viral RNAs. This splice-donor (SD) region can fold into a stable stem-loop structure and the thermodynamic stability of this RNA

  20. Hurricane Data Analysis Tool

    Science.gov (United States)

    Liu, Zhong; Ostrenga, Dana; Leptoukh, Gregory

    2011-01-01

    In order to facilitate Earth science data access, the NASA Goddard Earth Sciences Data Information Services Center (GES DISC) has developed a web prototype, the Hurricane Data Analysis Tool (HDAT; URL: http://disc.gsfc.nasa.gov/HDAT), to allow users to conduct online visualization and analysis of several remote sensing and model datasets for educational activities and studies of tropical cyclones and other weather phenomena. With a web browser and few mouse clicks, users can have a full access to terabytes of data and generate 2-D or time-series plots and animation without downloading any software and data. HDAT includes data from the NASA Tropical Rainfall Measuring Mission (TRMM), the NASA Quick Scatterometer(QuikSCAT) and NECP Reanalysis, and the NCEP/CPC half-hourly, 4-km Global (60 N - 60 S) IR Dataset. The GES DISC archives TRMM data. The daily global rainfall product derived from the 3-hourly multi-satellite precipitation product (3B42 V6) is available in HDAT. The TRMM Microwave Imager (TMI) sea surface temperature from the Remote Sensing Systems is in HDAT as well. The NASA QuikSCAT ocean surface wind and the NCEP Reanalysis provide ocean surface and atmospheric conditions, respectively. The global merged IR product, also known as, the NCEP/CPC half-hourly, 4-km Global (60 N -60 S) IR Dataset, is one of TRMM ancillary datasets. They are globally-merged pixel-resolution IR brightness temperature data (equivalent blackbody temperatures), merged from all available geostationary satellites (GOES-8/10, METEOSAT-7/5 & GMS). The GES DISC has collected over 10 years of the data beginning from February of 2000. This high temporal resolution (every 30 minutes) dataset not only provides additional background information to TRMM and other satellite missions, but also allows observing a wide range of meteorological phenomena from space, such as, hurricanes, typhoons, tropical cyclones, mesoscale convection system, etc. Basic functions include selection of area of

  1. Java Radar Analysis Tool

    Science.gov (United States)

    Zaczek, Mariusz P.

    2005-01-01

    Java Radar Analysis Tool (JRAT) is a computer program for analyzing two-dimensional (2D) scatter plots derived from radar returns showing pieces of the disintegrating Space Shuttle Columbia. JRAT can also be applied to similar plots representing radar returns showing aviation accidents, and to scatter plots in general. The 2D scatter plots include overhead map views and side altitude views. The superposition of points in these views makes searching difficult. JRAT enables three-dimensional (3D) viewing: by use of a mouse and keyboard, the user can rotate to any desired viewing angle. The 3D view can include overlaid trajectories and search footprints to enhance situational awareness in searching for pieces. JRAT also enables playback: time-tagged radar-return data can be displayed in time order and an animated 3D model can be moved through the scene to show the locations of the Columbia (or other vehicle) at the times of the corresponding radar events. The combination of overlays and playback enables the user to correlate a radar return with a position of the vehicle to determine whether the return is valid. JRAT can optionally filter single radar returns, enabling the user to selectively hide or highlight a desired radar return.

  2. Human Splicing Finder: an online bioinformatics tool to predict splicing signals.

    Science.gov (United States)

    Desmet, François-Olivier; Hamroun, Dalil; Lalande, Marine; Collod-Béroud, Gwenaëlle; Claustres, Mireille; Béroud, Christophe

    2009-05-01

    Thousands of mutations are identified yearly. Although many directly affect protein expression, an increasing proportion of mutations is now believed to influence mRNA splicing. They mostly affect existing splice sites, but synonymous, non-synonymous or nonsense mutations can also create or disrupt splice sites or auxiliary cis-splicing sequences. To facilitate the analysis of the different mutations, we designed Human Splicing Finder (HSF), a tool to predict the effects of mutations on splicing signals or to identify splicing motifs in any human sequence. It contains all available matrices for auxiliary sequence prediction as well as new ones for binding sites of the 9G8 and Tra2-beta Serine-Arginine proteins and the hnRNP A1 ribonucleoprotein. We also developed new Position Weight Matrices to assess the strength of 5' and 3' splice sites and branch points. We evaluated HSF efficiency using a set of 83 intronic and 35 exonic mutations known to result in splicing defects. We showed that the mutation effect was correctly predicted in almost all cases. HSF could thus represent a valuable resource for research, diagnostic and therapeutic (e.g. therapeutic exon skipping) purposes as well as for global studies, such as the GEN2PHEN European Project or the Human Variome Project.

  3. Identification of novel splice site mutation IVS9 + 1(G > A) and novel complex allele G355R/R359X in Type 1 Gaucher patients heterozygous for mutation N370S.

    Science.gov (United States)

    Hoitsema, Kourtnee; Amato, Dominick; Khan, Aneal; Sirrs, Sandra; Choy, Francis Y M

    2016-09-01

    Gaucher disease is an autosomal recessive lysosomal storage disorder resulting from deficient glucocerebrosidase activity. More than 350 mutations that cause Gaucher disease have been described to date. Novel mutations can potentially provide insight into the glucocerebrosidase structure-function relationship and biochemical basis of the disease. Here, we report the identification of two novel mutations in two unrelated patients with type I (non-neuronopathic) Gaucher disease: 1) a splice site mutation IVS9 + 1G > A; and (2) a complex allele (cis) G355R/R359X. Both patients have a common N370S mutation in the other allele. The splice site mutation results from an intronic base substitution (G to A, c.1328 + 1, g.5005) at the donor splice site of exon and intron 9. The complex allele results from two point mutations in exon 8 of glucocerebrosidase (G to C at c.1180, g.4396, and T to C at c. 1192, g.4408) substituting glycine by arginine (G355R) and arginine by a premature termination (R359X), respectively. In order to demonstrate that G355R/R359X are in cis arrangement, PCR-amplified glucocerebrosidase exon 8 genomic DNA from the patient was cloned into the vector pJET1.2 in Escherichia coli TOP10® strain. Out of the 15 clones that were sequence analyzed, 10 contained the normal allele sequence and 5 contained the complex allele G355R/R359X sequence showing both mutations in cis arrangement. Restriction fragment length polymorphism analysis using Hph1 restriction endonuclease digest was established for the IVS9 + 1G > A mutation for confirmation and efficient identification of this mutation in future patients. Past literature suggests that mutations affecting splicing patterns of the glucocerebrosidase transcript as well as mutations in Gaucher complex alleles are detrimental to enzyme activity. However, compound heterozygosity with N370S, a mild mutation, will lead to a mild phenotype. The cases reported here support these past findings.

  4. A donor splice site mutation in CISD2 generates multiple truncated, non-functional isoforms in Wolfram syndrome type 2 patients.

    Science.gov (United States)

    Cattaneo, Monica; La Sala, Lucia; Rondinelli, Maurizio; Errichiello, Edoardo; Zuffardi, Orsetta; Puca, Annibale Alessandro; Genovese, Stefano; Ceriello, Antonio

    2017-12-13

    Mutations in the gene that encodes CDGSH iron sulfur domain 2 (CISD2) are causative of Wolfram syndrome type 2 (WFS2), a rare autosomal recessive neurodegenerative disorder mainly characterized by diabetes mellitus, optic atrophy, peptic ulcer bleeding and defective platelet aggregation. Four mutations in the CISD2 gene have been reported. Among these mutations, the homozygous c.103 + 1G > A substitution was identified in the donor splice site of intron 1 in two Italian sisters and was predicted to cause a exon 1 to be skipped. Here, we employed molecular assays to characterize the c.103 + 1G > A mutation using the patient's peripheral blood mononuclear cells (PBMCs). 5'-RACE coupled with RT-PCR were used to analyse the effect of the c.103 + 1G > A mutation on mRNA splicing. Western blot analysis was used to analyse the consequences of the CISD2 mutation on the encoded protein. We demonstrated that the c.103 + 1G > A mutation functionally impaired mRNA splicing, producing multiple splice variants characterized by the whole or partial absence of exon 1, which introduced amino acid changes and a premature stop. The affected mRNAs resulted in either predicted targets for nonsense mRNA decay (NMD) or non-functional isoforms. We concluded that the c.103 + 1G > A mutation resulted in the loss of functional CISD2 protein in the two Italian WFS2 patients.

  5. Microgrid Analysis Tools Summary

    Energy Technology Data Exchange (ETDEWEB)

    Jimenez, Antonio [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Haase, Scott G [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Mathur, Shivani [Formerly NREL

    2018-03-05

    The over-arching goal of the Alaska Microgrid Partnership is to reduce the use of total imported fuel into communities to secure all energy services by at least 50% in Alaska's remote microgrids without increasing system life cycle costs while also improving overall system reliability, security, and resilience. One goal of the Alaska Microgrid Partnership is to investigate whether a combination of energy efficiency and high-contribution (from renewable energy) power systems can reduce total imported energy usage by 50% while reducing life cycle costs and improving reliability and resiliency. This presentation provides an overview of the following four renewable energy optimization tools. Information is from respective tool websites, tool developers, and author experience. Distributed Energy Resources Customer Adoption Model (DER-CAM) Microgrid Design Toolkit (MDT) Renewable Energy Optimization (REopt) Tool Hybrid Optimization Model for Electric Renewables (HOMER).

  6. Oscillation Baselining and Analysis Tool

    Energy Technology Data Exchange (ETDEWEB)

    2017-03-27

    PNNL developed a new tool for oscillation analysis and baselining. This tool has been developed under a new DOE Grid Modernization Laboratory Consortium (GMLC) Project (GM0072 - “Suite of open-source applications and models for advanced synchrophasor analysis”) and it is based on the open platform for PMU analysis. The Oscillation Baselining and Analysis Tool (OBAT) performs the oscillation analysis and identifies modes of oscillations (frequency, damping, energy, and shape). The tool also does oscillation event baselining (fining correlation between oscillations characteristics and system operating conditions).

  7. Sight Application Analysis Tool

    Energy Technology Data Exchange (ETDEWEB)

    Bronevetsky, G. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2014-09-17

    The scale and complexity of scientific applications makes it very difficult to optimize, debug and extend them to support new capabilities. We have developed a tool that supports developers’ efforts to understand the logical flow of their applications and interactions between application components and hardware in a way that scales with application complexity and parallelism.

  8. A family with hereditary hemochromatosis carrying HFE gene splice site mutation: a case report

    Directory of Open Access Journals (Sweden)

    NING Huibin

    2017-01-01

    Full Text Available ObjectiveTo investigate a new type of HFE gene mutation in a family with hereditary hemochromatosis (HH. MethodsThe analysis of HFE gene was performed for one patient with a confirmed diagnosis of HH and five relatives. Blood genomic DNA was extracted and PCR multiplication was performed for the exon and intron splice sequences of related HFE, HJV, HAMP, transferrin receptor 2 (TfR2, and SLC40A1 genes. After agarose gel electrophoresis and purification, bi-directional direct sequencing was performed to detect mutation sites. ResultsThe proband had abnormal liver function and increases in serum iron, total iron binding capacity, serum ferritin, and transferrin saturation, as well as T→C homozygous mutation in the fourth base of intron 2 in the intervening sequence of the exon EXON2 of HFE gene (IVs 2+4T→C, C/C homozygous, splicing, abnormal. There were no abnormalities in HJV, HAMP, TfR2, and SLC40A1 genes. The proband′s son had the same homozygous mutation, three relatives had heterozygous mutations, and one relative had no abnormal mutations. ConclusionGene detection plays an important role in the diagnosis of hemochromatosis, and IVs 2+4T→C mutation may be a new pathogenic mutation for HH in China.

  9. Galactosemia caused by a point mutation that activates cryptic donor splice site in the galactose-1-phosphate uridyltransferase gene

    Energy Technology Data Exchange (ETDEWEB)

    Wadelius, C.; Lagerkvist, A. (Univ. Hospital, Uppsala (Sweden) Uppsala Univ. (Sweden)); Molin, A.K.; Larsson, A. (Univ. Hospital, Uppsala (Sweden)); Von Doebeln, U. (Karolinska Institute, Stockholm (Sweden))

    1993-08-01

    Galactosemia affects 1/84,000 in Sweden and is manifested in infancy when the child is exposed to galactose in the diet. If untreated there is a risk of severe early symptoms and, even with a lactose-free diet, late symptoms such as mental retardation and ovarial dysfunction may develop. In classical galactosemia, galactose-1-phosphate uridyltransferase (GALT) (EC 2.7.7.12) is defective and the normal cDNA sequence of this enzyme has been characterized. Recently eight mutations leading to galactosemia were published. Heparinized venous blood was drawn from a patient with classical galactosemia. In the cDNA from the patient examined, an insertion of 54 bp was found at position 1087. Amplification of the relevant genomic region of the patient's DNA was performed. Exon-intron boundaries and intronic sequences thus determined revealed that the 54-bp insertion was located immediately downstream of exon 10. It was further found that the patient was heterozygous for a point mutation, changing a C to a T (in 5 of 9 clones) at the second base in the intron downstream of the insertion. This alteration creates a sequence which, as well as the ordinary splice site, differs in only two positions from the consensus sequence. It was found that the mutation occurred in only one of the 20 alleles from galactosemic patients and in none of the 200 alleles from normal controls. The mutation is inherited from the mother, who also was found to express the 54-bp-long insertion at the mRNA level. Sequences from the 5[prime] end of the coding region were determined after genomic amplification, revealing a sequence identical to that reported. The mutation on the paternal allele has not been identified. 9 refs., 1 fig.

  10. NOAA's Inundation Analysis Tool

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — Coastal storms and other meteorological phenomenon can have a significant impact on how high water levels rise and how often. The inundation analysis program is...

  11. ATLAS Distributed Analysis Tools

    CERN Document Server

    Gonzalez de la Hoz, Santiago; Liko, Dietrich

    2008-01-01

    The ATLAS production system has been successfully used to run production of simulation data at an unprecedented scale. Up to 10000 jobs were processed in one day. The experiences obtained operating the system on several grid flavours was essential to perform a user analysis using grid resources. First tests of the distributed analysis system were then performed. In the preparation phase data was registered in the LHC File Catalog (LFC) and replicated in external sites. For the main test, few resources were used. All these tests are only a first step towards the validation of the computing model. The ATLAS management computing board decided to integrate the collaboration efforts in distributed analysis in only one project, GANGA. The goal is to test the reconstruction and analysis software in a large scale Data production using Grid flavors in several sites. GANGA allows trivial switching between running test jobs on a local batch system and running large-scale analyses on the Grid; it provides job splitting a...

  12. Channel CAT: A Tactical Link Analysis Tool

    National Research Council Canada - National Science Library

    Coleman, Michael

    1997-01-01

    .... This thesis produced an analysis tool, the Channel Capacity Analysis Tool (Channel CAT), designed to provide an automated tool for the analysis of design decisions in developing client-server software...

  13. A splice-site mutation affecting the paired box of PAX3 in a three generation family with Waardenburg syndrome type I (WS1).

    Science.gov (United States)

    Attaie, A; Kim, E; Wilcox, E R; Lalwani, A K

    1997-06-01

    Waardenburg syndrome, an autosomal dominant disorder characterized by sensorineural hearing loss, pigmentary disturbances and other developmental defects, is the most frequent form of congenital deafness in humans. Mutations in the PAX3 gene, a transcription factor expressed during embryonic development, is associated with WS types I and III. Here we report the identification of a novel acceptor splice site mutation (86-2 A-->G) in the paired domain of the human PAX3 gene causing WS type I in a three generation family.

  14. Correction of a splice-site mutation in the beta-globin gene stimulated by triplex-forming peptide nucleic acids

    DEFF Research Database (Denmark)

    Chin, Joanna Y; Kuan, Jean Y; Lonkar, Pallavi S

    2008-01-01

    Splice-site mutations in the beta-globin gene can lead to aberrant transcripts and decreased functional beta-globin, causing beta-thalassemia. Triplex-forming DNA oligonucleotides (TFOs) and peptide nucleic acids (PNAs) have been shown to stimulate recombination in reporter gene loci in mammalian...... DNA fragments, can promote single base-pair modification at the start of the second intron of the beta-globin gene, the site of a common thalassemia-associated mutation. This single base pair change was detected by the restoration of proper splicing of transcripts produced from a green fluorescent...

  15. Physics Analysis Tools Workshop 2007

    CERN Multimedia

    Elizabeth Gallas,

    The ATLAS PAT (Physics Analysis Tools) group evaluates, develops and tests software tools for the analysis of physics data, consistent with the ATLAS analysis and event data models. Following on from earlier PAT workshops in London (2004), Tucson (2005) and Tokyo (2006), this year's workshop was hosted by the University of Bergen in Norway on April 23-28 with more than 60 participants. The workshop brought together PAT developers and users to discuss the available tools with an emphasis on preparing for data taking. At the start of the week, workshop participants, laptops and power converters in-hand, jumped headfirst into tutorials, learning how to become trigger-aware and how to use grid computing resources via the distributed analysis tools Panda and Ganga. The well organised tutorials were well attended and soon the network was humming, providing rapid results to the users and ample feedback to the developers. A mid-week break was provided by a relaxing and enjoyable cruise through the majestic Norwegia...

  16. Physics Analysis Tools Workshop Report

    CERN Multimedia

    Assamagan, K A

    A Physics Analysis Tools (PAT) workshop was held at the University of Tokyo in Tokyo Japan on May 15-19, 2006. Unlike the previous ones, this workshop brought together the core PAT developers and ATLAS users. The workshop was attended by 69 people from various institutions: Australia 5 Canada 1 China 6 CERN 4 Europe 7 Japan 32 Taiwan 3 USA 11 The agenda consisted of a 2-day tutorial for users, a 0.5-day user feedback discussion session between users and developers, and a 2-day core PAT workshop devoted to issues in Physics Analysis Tools activities. The tutorial, attended by users and developers, covered the following grounds: Event Selection with the TAG Event Selection Using the Athena-Aware NTuple Event Display Interactive Analysis within ATHENA Distributed Analysis Monte Carlo Truth Tools Trigger-Aware Analysis Event View By many accounts, the tutorial was useful. This workshop was the first time that the ATLAS Asia-Pacific community (Taiwan, Japan, China and Australia) go...

  17. Functions for fission yeast splicing factors SpSlu7 and SpPrp18 in alternative splice-site choice and stress-specific regulated splicing.

    Directory of Open Access Journals (Sweden)

    Geetha Melangath

    Full Text Available Budding yeast spliceosomal factors ScSlu7 and ScPrp18 interact and mediate intron 3'ss choice during second step pre-mRNA splicing. The fission yeast genome with abundant multi-intronic transcripts, degenerate splice signals and SR proteins is an apt unicellular fungal model to deduce roles for core spliceosomal factors in alternative splice-site choice, intron retention and to study the cellular implications of regulated splicing. From our custom microarray data we deduce a stringent reproducible subset of S. pombe alternative events. We examined the role of factors SpSlu7 or SpPrp18 for these splice events and investigated the relationship to growth phase and stress. Wild-type log and stationary phase cells showed ats1+ exon 3 skipped and intron 3 retained transcripts. Interestingly the non-consensus 5'ss in ats1+ intron 3 caused SpSlu7 and SpPrp18 dependent intron retention. We validated the use of an alternative 5'ss in dtd1+ intron 1 and of an upstream alternative 3'ss in DUF3074 intron 1. The dtd1+ intron 1 non-canonical 5'ss yielded an alternative mRNA whose levels increased in stationary phase. Utilization of dtd1+ intron 1 sub-optimal 5' ss required functional SpPrp18 and SpSlu7 while compromise in SpSlu7 function alone hampered the selection of the DUF3074 intron 1 non canonical 3'ss. We analysed the relative abundance of these splice isoforms during mild thermal, oxidative and heavy metal stress and found stress-specific splice patterns for ats1+ and DUF3074 intron 1 some of which were SpSlu7 and SpPrp18 dependent. By studying ats1+ splice isoforms during compromised transcription elongation rates in wild-type, spslu7-2 and spprp18-5 mutant cells we found dynamic and intron context-specific effects in splice-site choice. Our work thus shows the combinatorial effects of splice site strength, core splicing factor functions and transcription elongation kinetics to dictate alternative splice patterns which in turn serve as an additional

  18. Channel CAT: A Tactical Link Analysis Tool

    Science.gov (United States)

    1997-09-01

    NAVAL POSTGRADUATE SCHOOL Monterey, California THESIS CHANNEL CAT : A TACTICAL LINK ANALYSIS TOOL by Michael Glenn Coleman September 1997 Thesis...REPORT TYPE AND DATES COVERED September 1997 Master’s Thesis 4. TITLE AND SUBTITLE CHANNEL CAT : A TACTICAL LINK ANALYSIS TOOL 5. FUNDING NUMBERS 6...tool, the Channel Capacity Analysis Tool (Channel CAT ), designed to provide an automated tool for the anlysis of design decisions in developing client

  19. Modification of the Creator recombination system for proteomics applications – improved expression by addition of splice sites

    Science.gov (United States)

    Colwill, Karen; Wells, Clark D; Elder, Kelly; Goudreault, Marilyn; Hersi, Kadija; Kulkarni, Sarang; Hardy, W Rod; Pawson, Tony; Morin, Gregg B

    2006-01-01

    Background Recombinational systems have been developed to rapidly shuttle Open Reading Frames (ORFs) into multiple expression vectors in order to analyze the large number of cDNAs available in the post-genomic era. In the Creator system, an ORF introduced into a donor vector can be transferred with Cre recombinase to a library of acceptor vectors optimized for different applications. Usability of the Creator system is impacted by the ability to easily manipulate DNA, the number of acceptor vectors for downstream applications, and the level of protein expression from Creator vectors. Results To date, we have developed over 20 novel acceptor vectors that employ a variety of promoters and epitope tags commonly employed for proteomics applications and gene function analysis. We also made several enhancements to the donor vectors including addition of different multiple cloning sites to allow shuttling from pre-existing vectors and introduction of the lacZ alpha reporter gene to allow for selection. Importantly, in order to ameliorate any effects on protein expression of the loxP site between a 5' tag and ORF, we introduced a splicing event into our expression vectors. The message produced from the resulting 'Creator Splice' vector undergoes splicing in mammalian systems to remove the loxP site. Upon analysis of our Creator Splice constructs, we discovered that protein expression levels were also significantly increased. Conclusion The development of new donor and acceptor vectors has increased versatility during the cloning process and made this system compatible with a wider variety of downstream applications. The modifications introduced in our Creator Splice system were designed to remove extraneous sequences due to recombination but also aided in downstream analysis by increasing protein expression levels. As a result, we can now employ epitope tags that are detected less efficiently and reduce our assay scale to allow for higher throughput. The Creator Splice

  20. Modification of the Creator recombination system for proteomics applications--improved expression by addition of splice sites.

    Science.gov (United States)

    Colwill, Karen; Wells, Clark D; Elder, Kelly; Goudreault, Marilyn; Hersi, Kadija; Kulkarni, Sarang; Hardy, W Rod; Pawson, Tony; Morin, Gregg B

    2006-03-06

    Recombinational systems have been developed to rapidly shuttle Open Reading Frames (ORFs) into multiple expression vectors in order to analyze the large number of cDNAs available in the post-genomic era. In the Creator system, an ORF introduced into a donor vector can be transferred with Cre recombinase to a library of acceptor vectors optimized for different applications. Usability of the Creator system is impacted by the ability to easily manipulate DNA, the number of acceptor vectors for downstream applications, and the level of protein expression from Creator vectors. To date, we have developed over 20 novel acceptor vectors that employ a variety of promoters and epitope tags commonly employed for proteomics applications and gene function analysis. We also made several enhancements to the donor vectors including addition of different multiple cloning sites to allow shuttling from pre-existing vectors and introduction of the lacZ alpha reporter gene to allow for selection. Importantly, in order to ameliorate any effects on protein expression of the loxP site between a 5' tag and ORF, we introduced a splicing event into our expression vectors. The message produced from the resulting 'Creator Splice' vector undergoes splicing in mammalian systems to remove the loxP site. Upon analysis of our Creator Splice constructs, we discovered that protein expression levels were also significantly increased. The development of new donor and acceptor vectors has increased versatility during the cloning process and made this system compatible with a wider variety of downstream applications. The modifications introduced in our Creator Splice system were designed to remove extraneous sequences due to recombination but also aided in downstream analysis by increasing protein expression levels. As a result, we can now employ epitope tags that are detected less efficiently and reduce our assay scale to allow for higher throughput. The Creator Splice system appears to be an extremely

  1. Reload safety analysis automation tools

    International Nuclear Information System (INIS)

    Havlůj, F.; Hejzlar, J.; Vočka, R.

    2013-01-01

    Performing core physics calculations for the sake of reload safety analysis is a very demanding and time consuming process. This process generally begins with the preparation of libraries for the core physics code using a lattice code. The next step involves creating a very large set of calculations with the core physics code. Lastly, the results of the calculations must be interpreted, correctly applying uncertainties and checking whether applicable limits are satisfied. Such a procedure requires three specialized experts. One must understand the lattice code in order to correctly calculate and interpret its results. The next expert must have a good understanding of the physics code in order to create libraries from the lattice code results and to correctly define all the calculations involved. The third expert must have a deep knowledge of the power plant and the reload safety analysis procedure in order to verify, that all the necessary calculations were performed. Such a procedure involves many steps and is very time consuming. At ÚJV Řež, a.s., we have developed a set of tools which can be used to automate and simplify the whole process of performing reload safety analysis. Our application QUADRIGA automates lattice code calculations for library preparation. It removes user interaction with the lattice code and reduces his task to defining fuel pin types, enrichments, assembly maps and operational parameters all through a very nice and user-friendly GUI. The second part in reload safety analysis calculations is done by CycleKit, a code which is linked with our core physics code ANDREA. Through CycleKit large sets of calculations with complicated interdependencies can be performed using simple and convenient notation. CycleKit automates the interaction with ANDREA, organizes all the calculations, collects the results, performs limit verification and displays the output in clickable html format. Using this set of tools for reload safety analysis simplifies

  2. Integrated Radiation Analysis and Design Tools

    Data.gov (United States)

    National Aeronautics and Space Administration — The Integrated Radiation Analysis and Design Tools (IRADT) Project develops and maintains an integrated tool set that collects the current best practices, databases,...

  3. System analysis: Developing tools for the future

    Energy Technology Data Exchange (ETDEWEB)

    De Jong, K.; clever, J.; Draper, J.V.; Davies, B.; Lonks, A.

    1996-02-01

    This report introduces and evaluates system analysis tools that were developed, or are under development, for the Robotics Technology Development Program (RTDP). Additionally, it discusses system analysis work completed using these tools aimed at completing a system analysis of the retrieval of waste from underground storage tanks on the Hanford Reservation near Richland, Washington. The tools developed and evaluated include a mixture of commercially available tools adapted to RTDP requirements, and some tools developed in house. The tools that are included in this report include: a Process Diagramming Tool, a Cost Modeling Tool, an Amortization Modeling Tool, a graphical simulation linked to the Cost Modeling Tool, a decision assistance tool, and a system thinking tool. Additionally, the importance of performance testing to the RTDP and the results of such testing executed is discussed. Further, the results of the Tank Waste Retrieval (TWR) System Diagram, the TWR Operations Cost Model, and the TWR Amortization Model are presented, and the implication of the results are discussed. Finally, the RTDP system analysis tools are assessed and some recommendations are made regarding continuing development of the tools and process.

  4. ADVANCED POWER SYSTEMS ANALYSIS TOOLS

    Energy Technology Data Exchange (ETDEWEB)

    Robert R. Jensen; Steven A. Benson; Jason D. Laumb

    2001-08-31

    The use of Energy and Environmental Research Center (EERC) modeling tools and improved analytical methods has provided key information in optimizing advanced power system design and operating conditions for efficiency, producing minimal air pollutant emissions and utilizing a wide range of fossil fuel properties. This project was divided into four tasks: the demonstration of the ash transformation model, upgrading spreadsheet tools, enhancements to analytical capabilities using the scanning electron microscopy (SEM), and improvements to the slag viscosity model. The ash transformation model, Atran, was used to predict the size and composition of ash particles, which has a major impact on the fate of the combustion system. To optimize Atran key factors such as mineral fragmentation and coalescence, the heterogeneous and homogeneous interaction of the organically associated elements must be considered as they are applied to the operating conditions. The resulting model's ash composition compares favorably to measured results. Enhancements to existing EERC spreadsheet application included upgrading interactive spreadsheets to calculate the thermodynamic properties for fuels, reactants, products, and steam with Newton Raphson algorithms to perform calculations on mass, energy, and elemental balances, isentropic expansion of steam, and gasifier equilibrium conditions. Derivative calculations can be performed to estimate fuel heating values, adiabatic flame temperatures, emission factors, comparative fuel costs, and per-unit carbon taxes from fuel analyses. Using state-of-the-art computer-controlled scanning electron microscopes and associated microanalysis systems, a method to determine viscosity using the incorporation of grey-scale binning acquired by the SEM image was developed. The image analysis capabilities of a backscattered electron image can be subdivided into various grey-scale ranges that can be analyzed separately. Since the grey scale's intensity

  5. Autosomal recessive deafness 1A (DFNB1A) in Yakut population isolate in Eastern Siberia: extensive accumulation of the splice site mutation IVS1+1G>A in GJB2 gene as a result of founder effect.

    Science.gov (United States)

    Barashkov, Nikolay A; Dzhemileva, Lilya U; Fedorova, Sardana A; Teryutin, Fedor M; Posukh, Olga L; Fedotova, Elvira E; Lobov, Simeon L; Khusnutdinova, Elza K

    2011-09-01

    Hereditary forms of hearing impairment (HI) caused by GJB2 (Cx26) mutations are the frequent sensory disorders registered among newborns in various human populations. In this study, we present data on the molecular, audiological and population features of autosomal recessive deafness 1A (DFNB1A) associated with the donor splicing site IVS1+1G>A mutation of GJB2 gene in Yakut population isolate of the Sakha Republic (Yakutia) located in Eastern Siberia (Russian Federation). The Yakut population exhibits high frequency of some Mendelian disorders, which are rare in other populations worldwide. Mutational analysis of GJB2 gene in 86 unrelated Yakut patients with congenital HI without other clinical features has been performed. In this study, we registered a large cohort of Yakut patients homozygous for the IVS1+1G>A mutation (70 unrelated deaf subjects in total). Detailed audiological analysis of 40 deaf subjects with genotype IVS1+1G>A/IVS1+1G>A revealed significant association of this genotype with mostly symmetrical bilateral severe to profound HI (85% severe-to-profound HI versus 15% mild-to-moderate HI, PA mutation (11.7%) has been found in Yakut population. Reconstruction of 140 haplotypes with IVS1+1G>A mutation demonstrates the common origin of all mutant chromosomes found in Yakuts. The age of mutation was estimated to be approximately 800 years. These findings characterize Eastern Siberia as the region with the most extensive accumulation of the IVS1+1G>A mutation in the world as a result of founder effect.

  6. Sustainability Tools Inventory - Initial Gaps Analysis | Science ...

    Science.gov (United States)

    This report identifies a suite of tools that address a comprehensive set of community sustainability concerns. The objective is to discover whether "gaps" exist in the tool suite’s analytic capabilities. These tools address activities that significantly influence resource consumption, waste generation, and hazard generation including air pollution and greenhouse gases. In addition, the tools have been evaluated using four screening criteria: relevance to community decision making, tools in an appropriate developmental stage, tools that may be transferrable to situations useful for communities, and tools with requiring skill levels appropriate to communities. This document provides an initial gap analysis in the area of community sustainability decision support tools. It provides a reference to communities for existing decision support tools, and a set of gaps for those wishing to develop additional needed tools to help communities to achieve sustainability. It contributes to SHC 1.61.4

  7. Exome Sequencing Identifies a Novel LMNA Splice-Site Mutation and Multigenic Heterozygosity of Potential Modifiers in a Family with Sick Sinus Syndrome, Dilated Cardiomyopathy, and Sudden Cardiac Death.

    Directory of Open Access Journals (Sweden)

    Michael V Zaragoza

    Full Text Available The goals are to understand the primary genetic mechanisms that cause Sick Sinus Syndrome and to identify potential modifiers that may result in intrafamilial variability within a multigenerational family. The proband is a 63-year-old male with a family history of individuals (>10 with sinus node dysfunction, ventricular arrhythmia, cardiomyopathy, heart failure, and sudden death. We used exome sequencing of a single individual to identify a novel LMNA mutation and demonstrated the importance of Sanger validation and family studies when evaluating candidates. After initial single-gene studies were negative, we conducted exome sequencing for the proband which produced 9 gigabases of sequencing data. Bioinformatics analysis showed 94% of the reads mapped to the reference and identified 128,563 unique variants with 108,795 (85% located in 16,319 genes of 19,056 target genes. We discovered multiple variants in known arrhythmia, cardiomyopathy, or ion channel associated genes that may serve as potential modifiers in disease expression. To identify candidate mutations, we focused on ~2,000 variants located in 237 genes of 283 known arrhythmia, cardiomyopathy, or ion channel associated genes. We filtered the candidates to 41 variants in 33 genes using zygosity, protein impact, database searches, and clinical association. Only 21 of 41 (51% variants were validated by Sanger sequencing. We selected nine confirmed variants with minor allele frequencies G, a novel heterozygous splice-site mutation as the primary mutation with rare or novel variants in HCN4, MYBPC3, PKP4, TMPO, TTN, DMPK and KCNJ10 as potential modifiers and a mechanism consistent with haploinsufficiency.

  8. Protein analysis tools and services at IBIVU

    Directory of Open Access Journals (Sweden)

    Brandt Bernd W.

    2011-06-01

    Full Text Available During the last years several new tools applicable to protein analysis have made available on the IBIVU web site. Recently, a number of tools, ranging from multiple sequence alignment construction to domain prediction, have been updated and/or extended with services for programmatic access using SOAP. We provide an overview of these tools and their application.

  9. Early-Onset X-Linked Retinitis Pigmentosa in a Heterozygous Female Harboring an Intronic Donor Splice Site Mutation in the Retinitis Pigmentosa GTPase Regulator Gene.

    Science.gov (United States)

    Shifera, Amde Selassie; Kay, Christine Nichols

    2015-01-01

    To report a heterozygous female presenting with an early-onset and severe form of X-linked retinitis pigmentosa (XLRP). This is a case series presenting the clinical findings in a heterozygous female with XLRP and two of her family members. Fundus photography, fundus autofluorescence, ocular coherence tomography, and visual perimetry are presented. The proband reported here is a heterozygous female who presented at the age of 8 years with an early onset and aggressive form of XLRP. The patient belongs to a four-generation family with a total of three affected females and four affected males. The patient was initially diagnosed with retinitis pigmentosa (RP) at the age of 4 years. Genetic testing identified a heterozygous donor splice site mutation in intron 1 (IVS1 + 1G > A) of the retinitis pigmentosa GTPase regulator gene. The father of the proband was diagnosed with RP when he was a young child. The sister of the proband, evaluated at the age of 6 years, showed macular pigmentary changes. Although carriers of XLRP are usually asymptomatic or have a mild disease of late onset, the proband presented here exhibited an early-onset, aggressive form of the disease. It is not clear why some carrier females manifest a severe phenotype. A better understanding of the genetic processes involved in the penetrance and expressivity of XLRP in heterozygous females could assist in providing the appropriate counseling to affected families.

  10. Human papillomavirus type 16 E2 and E6 are RNA-binding proteins and inhibit in vitro splicing of pre-mRNAs with suboptimal splice sites

    International Nuclear Information System (INIS)

    Bodaghi, Sohrab; Jia Rong; Zheng Zhiming

    2009-01-01

    Human papillomavirus type 16 (HPV16) genome expresses six regulatory proteins (E1, E2, E4, E5, E6, and E7) which regulate viral DNA replication, gene expression, and cell function. We expressed HPV16 E2, E4, E6, and E7 from bacteria as GST fusion proteins and examined their possible functions in RNA splicing. Both HPV16 E2, a viral transactivator protein, and E6, a viral oncoprotein, inhibited splicing of pre-mRNAs containing an intron with suboptimal splice sites, whereas HPV5 E2 did not. The N-terminal half and the hinge region of HPV16 E2 as well as the N-terminal and central portions of HPV16 E6 are responsible for the suppression. HPV16 E2 interacts with pre-mRNAs through its C-terminal DNA-binding domain. HPV16 E6 binds pre-mRNAs via nuclear localization signal (NLS3) in its C-terminal half. Low-risk HPV6 E6, a cytoplasmic protein, does not bind RNA. Notably, both HPV16 E2 and E6 selectively bind to the intron region of pre-mRNAs and interact with a subset of cellular SR proteins. Together, these findings suggest that HPV16 E2 and E6 are RNA binding proteins and might play roles in posttranscriptional regulation during virus infection

  11. CHARGE syndrome: a recurrent hotspot of mutations in CHD7 IVS25 analyzed by bioinformatic tools and minigene assays.

    Science.gov (United States)

    Legendre, Marine; Rodriguez-Ballesteros, Montserrat; Rossi, Massimiliano; Abadie, Véronique; Amiel, Jeanne; Revencu, Nicole; Blanchet, Patricia; Brioude, Frédéric; Delrue, Marie-Ange; Doubaj, Yassamine; Sefiani, Abdelaziz; Francannet, Christine; Holder-Espinasse, Muriel; Jouk, Pierre-Simon; Julia, Sophie; Melki, Judith; Mur, Sébastien; Naudion, Sophie; Fabre-Teste, Jennifer; Busa, Tiffany; Stamm, Stephen; Lyonnet, Stanislas; Attie-Bitach, Tania; Kitzis, Alain; Gilbert-Dussardier, Brigitte; Bilan, Frédéric

    2018-02-01

    CHARGE syndrome is a rare genetic disorder mainly due to de novo and private truncating mutations of CHD7 gene. Here we report an intriguing hot spot of intronic mutations (c.5405-7G > A, c.5405-13G > A, c.5405-17G > A and c.5405-18C > A) located in CHD7 IVS25. Combining computational in silico analysis, experimental branch-point determination and in vitro minigene assays, our study explains this mutation hot spot by a particular genomic context, including the weakness of the IVS25 natural acceptor-site and an unconventional lariat sequence localized outside the common 40 bp upstream the acceptor splice site. For each of the mutations reported here, bioinformatic tools indicated a newly created 3' splice site, of which the existence was confirmed using pSpliceExpress, an easy-to-use and reliable splicing reporter tool. Our study emphasizes the idea that combining these two complementary approaches could increase the efficiency of routine molecular diagnosis.

  12. A novel splice site mutation in the dentin sialophosphoprotein gene in a Chinese family with dentinogenesis imperfecta type II

    International Nuclear Information System (INIS)

    Wang Haoyang; Hou Yanning; Cui Yingxia; Huang Yufeng; Shi Yichao; Xia Xinyi; Lu Hongyong; Wang Yunhua; Li Xiaojun

    2009-01-01

    Twenty-four individuals were investigated that spanned six generations in a Chinese family affected with an apparently autosomal dominant form of dentinogenesis imperfecta type II (DGI-II, OMIM 125490). All affected individuals presented with typical, clinical and radiographic features of DGI-II, but without bilateral progressive high-frequency sensorineural hearing loss. To investigate the mutated molecule, a positional candidate approach was used to determine the mutated gene in this family. Genomic DNA was obtained from 24 affected individuals, 18 unaffected relatives of the family and 50 controls. Haplotype analysis was performed using leukocyte DNA for 6 short tandem repeat (STR) markers present in chromosome 4 (D4S1534, GATA62A11, DSPP, DMP1, SPP1 and D4S1563). In the critical region between D4S1534 and DMP1, the dentin sialophosphoprotein (DSPP) gene (OMIM *125485) was considered as the strongest candidate gene. The first four exons and exon/intron boundaries of the gene were analyzed using DNA from 24 affected individuals and 18 unaffected relatives of the same family. DNA sequencing revealed a heterozygous deletion mutation in intron 2 (at positions -3 to -25), which resulted in a frameshift mutation, that changed the acceptor site sequence from CAG to AAG (IVS2-3C→A) and may also have disrupted the branch point consensus sequence in intron 2. The mutation was found in the 24 affected individuals, but not in the 18 unaffected relatives and 50 controls. The deletion was identified by allele-specific sequencing and denaturing high-performance liquid chromatography (DHPLC) analysis. We conclude that the heterozygous deletion mutation contributed to the pathogenesis of DGI-II

  13. Novel splice-site and missense mutations in the ALDH1A3 gene underlying autosomal recessive anophthalmia/microphthalmia.

    Science.gov (United States)

    Semerci, C Nur; Kalay, Ersan; Yıldırım, Cem; Dinçer, Tuba; Olmez, Akgün; Toraman, Bayram; Koçyiğit, Ali; Bulgu, Yunus; Okur, Volkan; Satıroğlu-Tufan, Lale; Akarsu, Nurten A

    2014-06-01

    This study aimed to identify the underlying genetic defect responsible for anophthalmia/microphthalmia. In total, two Turkish families with a total of nine affected individuals were included in the study. Affymetrix 250 K single nucleotide polymorphism genotyping and homozygosity mapping were used to identify the localisation of the genetic defect in question. Coding region of the ALDH1A3 gene was screened via direct sequencing. cDNA samples were generated from primary fibroblast cell cultures for expression analysis. Reverse transcriptase PCR (RT-PCR) analysis was performed using direct sequencing of the obtained fragments. The causative genetic defect was mapped to chromosome 15q26.3. A homozygous G>A substitution (c.666G>A) at the last nucleotide of exon 6 in the ALDH1A3 gene was identified in the first family. Further cDNA sequencing of ALDH1A3 showed that the c.666G>A mutation caused skipping of exon 6, which predicted in-frame loss of 43 amino acids (p.Trp180_Glu222del). A novel missense c.1398C>A mutation in exon 12 of ALDH1A3 that causes the substitution of a conserved asparagine by lysine at amino acid position 466 (p.Asn466Lys) was observed in the second family. No extraocular findings-except for nevus flammeus in one affected individual and a variant of Dandy-Walker malformation in another affected individual-were observed. Autistic-like behaviour and mental retardation were observed in three cases. In conclusion, novel ALDH1A3 mutations identified in the present study confirm the pivotal role of ALDH1A3 in human eye development. Autistic features, previously reported as an associated finding, were considered to be the result of social deprivation and inadequate parenting during early infancy in the presented families. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://group.bmj.com/group/rights-licensing/permissions.

  14. Cancer-Related Analysis of Variants Toolkit (CRAVAT) | Informatics Technology for Cancer Research (ITCR)

    Science.gov (United States)

    CRAVAT is an easy to use web-based tool for analysis of cancer variants (missense, nonsense, in-frame indel, frameshift indel, splice site). CRAVAT provides scores and a variety of annotations that assist in identification of important variants. Results are provided in an interactive, highly graphical webpage and include annotated 3D structure visualization. CRAVAT is also available for local or cloud-based installation as a Docker container. MuPIT provides 3D visualization of mutation clusters and functional annotation and is now integrated with CRAVAT.

  15. Affordances of agricultural systems analysis tools

    NARCIS (Netherlands)

    Ditzler, Lenora; Klerkx, Laurens; Chan-Dentoni, Jacqueline; Posthumus, Helena; Krupnik, Timothy J.; Ridaura, Santiago López; Andersson, Jens A.; Baudron, Frédéric; Groot, Jeroen C.J.

    2018-01-01

    The increasingly complex challenges facing agricultural systems require problem-solving processes and systems analysis (SA) tools that engage multiple actors across disciplines. In this article, we employ the theory of affordances to unravel what tools may furnish users, and how those affordances

  16. Economic and Financial Analysis Tools | Energy Analysis | NREL

    Science.gov (United States)

    Economic and Financial Analysis Tools Economic and Financial Analysis Tools Use these economic and . Job and Economic Development Impact (JEDI) Model Use these easy-to-use, spreadsheet-based tools to analyze the economic impacts of constructing and operating power generation and biofuel plants at the

  17. Post-Flight Data Analysis Tool

    Science.gov (United States)

    George, Marina

    2018-01-01

    A software tool that facilitates the retrieval and analysis of post-flight data. This allows our team and other teams to effectively and efficiently analyze and evaluate post-flight data in order to certify commercial providers.

  18. Quick Spacecraft Thermal Analysis Tool, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — For spacecraft design and development teams concerned with cost and schedule, the Quick Spacecraft Thermal Analysis Tool (QuickSTAT) is an innovative software suite...

  19. The RUBA Watchdog Video Analysis Tool

    DEFF Research Database (Denmark)

    Bahnsen, Chris Holmberg; Madsen, Tanja Kidholm Osmann; Jensen, Morten Bornø

    We have developed a watchdog video analysis tool called RUBA (Road User Behaviour Analysis) to use for processing of traffic video. This report provides an overview of the functions of RUBA and gives a brief introduction into how analyses can be made in RUBA.......We have developed a watchdog video analysis tool called RUBA (Road User Behaviour Analysis) to use for processing of traffic video. This report provides an overview of the functions of RUBA and gives a brief introduction into how analyses can be made in RUBA....

  20. Paediatric Automatic Phonological Analysis Tools (APAT).

    Science.gov (United States)

    Saraiva, Daniela; Lousada, Marisa; Hall, Andreia; Jesus, Luis M T

    2017-12-01

    To develop the pediatric Automatic Phonological Analysis Tools (APAT) and to estimate inter and intrajudge reliability, content validity, and concurrent validity. The APAT were constructed using Excel spreadsheets with formulas. The tools were presented to an expert panel for content validation. The corpus used in the Portuguese standardized test Teste Fonético-Fonológico - ALPE produced by 24 children with phonological delay or phonological disorder was recorded, transcribed, and then inserted into the APAT. Reliability and validity of APAT were analyzed. The APAT present strong inter- and intrajudge reliability (>97%). The content validity was also analyzed (ICC = 0.71), and concurrent validity revealed strong correlations between computerized and manual (traditional) methods. The development of these tools contributes to fill existing gaps in clinical practice and research, since previously there were no valid and reliable tools/instruments for automatic phonological analysis, which allowed the analysis of different corpora.

  1. Photogrammetry Tool for Forensic Analysis

    Science.gov (United States)

    Lane, John

    2012-01-01

    A system allows crime scene and accident scene investigators the ability to acquire visual scene data using cameras for processing at a later time. This system uses a COTS digital camera, a photogrammetry calibration cube, and 3D photogrammetry processing software. In a previous instrument developed by NASA, the laser scaling device made use of parallel laser beams to provide a photogrammetry solution in 2D. This device and associated software work well under certain conditions. In order to make use of a full 3D photogrammetry system, a different approach was needed. When using multiple cubes, whose locations relative to each other are unknown, a procedure that would merge the data from each cube would be as follows: 1. One marks a reference point on cube 1, then marks points on cube 2 as unknowns. This locates cube 2 in cube 1 s coordinate system. 2. One marks reference points on cube 2, then marks points on cube 1 as unknowns. This locates cube 1 in cube 2 s coordinate system. 3. This procedure is continued for all combinations of cubes. 4. The coordinate of all of the found coordinate systems is then merged into a single global coordinate system. In order to achieve maximum accuracy, measurements are done in one of two ways, depending on scale: when measuring the size of objects, the coordinate system corresponding to the nearest cube is used, or when measuring the location of objects relative to a global coordinate system, a merged coordinate system is used. Presently, traffic accident analysis is time-consuming and not very accurate. Using cubes with differential GPS would give absolute positions of cubes in the accident area, so that individual cubes would provide local photogrammetry calibration to objects near a cube.

  2. A short in-frame deletion in NTRK1 tyrosine kinase domain caused by a novel splice site mutation in a patient with congenital insensitivity to pain with anhidrosis

    Directory of Open Access Journals (Sweden)

    Arístegui Javier

    2011-06-01

    Full Text Available Abstract Background Congenital insensitivity to pain with anhidrosis (CIPA is a rare autosomal recessive genetic disease characterized by the lack of reaction to noxious stimuli and anhidrosis. It is caused by mutations in the NTRK1 gene, which encodes the high affinity tyrosine kinase receptor I for Neurotrophic Growth Factor (NGF. Case Presentation We present the case of a female patient diagnosed with CIPA at the age of 8 months. The patient is currently 6 years old and her psychomotor development conforms to her age (RMN, SPECT and psychological study are in the range of normality. PCR amplification of DNA, followed by direct sequencing, was used to investigate the presence of NTRK1 gene mutations. Reverse transcriptase (RT-PCR amplification of RNA, followed by cloning and sequencing of isolated RT-PCR products was used to characterize the effect of the mutations on NTRK1 mRNA splicing. The clinical diagnosis of CIPA was confirmed by the detection of two splice-site mutations in NTRK1, revealing that the patient was a compound heterozygote at this gene. One of these alterations, c.574+1G>A, is located at the splice donor site of intron 5. We also found a second mutation, c.2206-2 A>G, not previously reported in the literature, which is located at the splice acceptor site of intron 16. Each parent was confirmed to be a carrier for one of the mutations by DNA sequencing analysis. It has been proposed that the c.574+1G>A mutation would cause exon 5 skipping during NTRK1 mRNA splicing. We could confirm this prediction and, more importantly, we provide evidence that the novel c.2206-2A>G mutation also disrupts normal NTRK1 splicing, leading to the use of an alternative splice acceptor site within exon 17. As a consequence, this mutation would result in the production of a mutant NTRK1 protein with a seven aminoacid in-frame deletion in its tyrosine kinase domain. Conclusions We present the first description of a CIPA-associated NTRK1 mutation

  3. SBAT. A stochastic BPMN analysis tool

    DEFF Research Database (Denmark)

    Herbert, Luke Thomas; Hansen, Zaza Nadja Lee; Jacobsen, Peter

    2014-01-01

    This paper presents SBAT, a tool framework for the modelling and analysis of complex business workflows. SBAT is applied to analyse an example from the Danish baked goods industry. Based upon the Business Process Modelling and Notation (BPMN) language for business process modelling, we describe...... a formalised variant of this language extended to support the addition of intention preserving stochastic branching and parameterised reward annotations. Building on previous work, we detail the design of SBAT, a software tool which allows for the analysis of BPMN models. Within SBAT, properties of interest...

  4. Applied regression analysis a research tool

    CERN Document Server

    Pantula, Sastry; Dickey, David

    1998-01-01

    Least squares estimation, when used appropriately, is a powerful research tool. A deeper understanding of the regression concepts is essential for achieving optimal benefits from a least squares analysis. This book builds on the fundamentals of statistical methods and provides appropriate concepts that will allow a scientist to use least squares as an effective research tool. Applied Regression Analysis is aimed at the scientist who wishes to gain a working knowledge of regression analysis. The basic purpose of this book is to develop an understanding of least squares and related statistical methods without becoming excessively mathematical. It is the outgrowth of more than 30 years of consulting experience with scientists and many years of teaching an applied regression course to graduate students. Applied Regression Analysis serves as an excellent text for a service course on regression for non-statisticians and as a reference for researchers. It also provides a bridge between a two-semester introduction to...

  5. Accelerator physics analysis with interactive tools

    International Nuclear Information System (INIS)

    Holt, J.A.; Michelotti, L.

    1993-05-01

    Work is in progress on interactive tools for linear and nonlinear accelerator design, analysis, and simulation using X-based graphics. The BEAMLINE and MXYZPTLK class libraries, were used with an X Windows graphics library to build a program for interactively editing lattices and studying their properties

  6. Paramedir: A Tool for Programmable Performance Analysis

    Science.gov (United States)

    Jost, Gabriele; Labarta, Jesus; Gimenez, Judit

    2004-01-01

    Performance analysis of parallel scientific applications is time consuming and requires great expertise in areas such as programming paradigms, system software, and computer hardware architectures. In this paper we describe a tool that facilitates the programmability of performance metric calculations thereby allowing the automation of the analysis and reducing the application development time. We demonstrate how the system can be used to capture knowledge and intuition acquired by advanced parallel programmers in order to be transferred to novice users.

  7. The CANDU alarm analysis tool (CAAT)

    Energy Technology Data Exchange (ETDEWEB)

    Davey, E C; Feher, M P; Lupton, L R [Control Centre Technology Branch, ON (Canada)

    1997-09-01

    AECL undertook the development of a software tool to assist alarm system designers and maintainers based on feedback from several utilities and design groups. The software application is called the CANDU Alarm Analysis Tool (CAAT) and is being developed to: Reduce by one half the effort required to initially implement and commission alarm system improvements; improve the operational relevance, consistency and accuracy of station alarm information; record the basis for alarm-related decisions; provide printed reports of the current alarm configuration; and, make day-to-day maintenance of the alarm database less tedious and more cost-effective. The CAAT assists users in accessing, sorting and recording relevant information, design rules, decisions, and provides reports in support of alarm system maintenance, analysis of design changes, or regulatory inquiry. The paper discusses the need for such a tool, outlines the application objectives and principles used to guide tool development, describes the how specific tool features support user design and maintenance tasks, and relates the lessons learned from early application experience. (author). 4 refs, 2 figs.

  8. The CANDU alarm analysis tool (CAAT)

    International Nuclear Information System (INIS)

    Davey, E.C.; Feher, M.P.; Lupton, L.R.

    1997-01-01

    AECL undertook the development of a software tool to assist alarm system designers and maintainers based on feedback from several utilities and design groups. The software application is called the CANDU Alarm Analysis Tool (CAAT) and is being developed to: Reduce by one half the effort required to initially implement and commission alarm system improvements; improve the operational relevance, consistency and accuracy of station alarm information; record the basis for alarm-related decisions; provide printed reports of the current alarm configuration; and, make day-to-day maintenance of the alarm database less tedious and more cost-effective. The CAAT assists users in accessing, sorting and recording relevant information, design rules, decisions, and provides reports in support of alarm system maintenance, analysis of design changes, or regulatory inquiry. The paper discusses the need for such a tool, outlines the application objectives and principles used to guide tool development, describes the how specific tool features support user design and maintenance tasks, and relates the lessons learned from early application experience. (author). 4 refs, 2 figs

  9. Decision Analysis Tools for Volcano Observatories

    Science.gov (United States)

    Hincks, T. H.; Aspinall, W.; Woo, G.

    2005-12-01

    Staff at volcano observatories are predominantly engaged in scientific activities related to volcano monitoring and instrumentation, data acquisition and analysis. Accordingly, the academic education and professional training of observatory staff tend to focus on these scientific functions. From time to time, however, staff may be called upon to provide decision support to government officials responsible for civil protection. Recognizing that Earth scientists may have limited technical familiarity with formal decision analysis methods, specialist software tools that assist decision support in a crisis should be welcome. A review is given of two software tools that have been under development recently. The first is for probabilistic risk assessment of human and economic loss from volcanic eruptions, and is of practical use in short and medium-term risk-informed planning of exclusion zones, post-disaster response, etc. A multiple branch event-tree architecture for the software, together with a formalism for ascribing probabilities to branches, have been developed within the context of the European Community EXPLORIS project. The second software tool utilizes the principles of the Bayesian Belief Network (BBN) for evidence-based assessment of volcanic state and probabilistic threat evaluation. This is of practical application in short-term volcano hazard forecasting and real-time crisis management, including the difficult challenge of deciding when an eruption is over. An open-source BBN library is the software foundation for this tool, which is capable of combining synoptically different strands of observational data from diverse monitoring sources. A conceptual vision is presented of the practical deployment of these decision analysis tools in a future volcano observatory environment. Summary retrospective analyses are given of previous volcanic crises to illustrate the hazard and risk insights gained from use of these tools.

  10. Designing a Tool for History Textbook Analysis

    Directory of Open Access Journals (Sweden)

    Katalin Eszter Morgan

    2012-11-01

    Full Text Available This article describes the process by which a five-dimensional tool for history textbook analysis was conceptualized and developed in three stages. The first stage consisted of a grounded theory approach to code the content of the sampled chapters of the books inductively. After that the findings from this coding process were combined with principles of text analysis as derived from the literature, specifically focusing on the notion of semiotic mediation as theorized by Lev VYGOTSKY. We explain how we then entered the third stage of the development of the tool, comprising five dimensions. Towards the end of the article we show how the tool could be adapted to serve other disciplines as well. The argument we forward in the article is for systematic and well theorized tools with which to investigate textbooks as semiotic mediators in education. By implication, textbook authors can also use these as guidelines. URN: http://nbn-resolving.de/urn:nbn:de:0114-fqs130170

  11. Splicing Analysis of Exonic OCRL Mutations Causing Lowe Syndrome or Dent-2 Disease

    Directory of Open Access Journals (Sweden)

    Lorena Suarez-Artiles

    2018-01-01

    Full Text Available Mutations in the OCRL gene are associated with both Lowe syndrome and Dent-2 disease. Patients with Lowe syndrome present congenital cataracts, mental disabilities and a renal proximal tubulopathy, whereas patients with Dent-2 disease exhibit similar proximal tubule dysfunction but only mild, or no additional clinical defects. It is not yet understood why some OCRL mutations cause the phenotype of Lowe syndrome, while others develop the milder phenotype of Dent-2 disease. Our goal was to gain new insights into the consequences of OCRL exonic mutations on pre-mRNA splicing. Using predictive bioinformatics tools, we selected thirteen missense mutations and one synonymous mutation based on their potential effects on splicing regulatory elements or splice sites. These mutations were analyzed in a minigene splicing assay. Results of the RNA analysis showed that three presumed missense mutations caused alterations in pre-mRNA splicing. Mutation c.741G>T; p.(Trp247Cys generated splicing silencer sequences and disrupted splicing enhancer motifs that resulted in skipping of exon 9, while mutations c.2581G>A; p.(Ala861Thr and c.2581G>C; p.(Ala861Pro abolished a 5′ splice site leading to skipping of exon 23. Mutation c.741G>T represents the first OCRL exonic variant outside the conserved splice site dinucleotides that results in alteration of pre-mRNA splicing. Our results highlight the importance of evaluating the effects of OCRL exonic mutations at the mRNA level.

  12. Integrated tools for control-system analysis

    Science.gov (United States)

    Ostroff, Aaron J.; Proffitt, Melissa S.; Clark, David R.

    1989-01-01

    The basic functions embedded within a user friendly software package (MATRIXx) are used to provide a high level systems approach to the analysis of linear control systems. Various control system analysis configurations are assembled automatically to minimize the amount of work by the user. Interactive decision making is incorporated via menu options and at selected points, such as in the plotting section, by inputting data. There are five evaluations such as the singular value robustness test, singular value loop transfer frequency response, Bode frequency response, steady-state covariance analysis, and closed-loop eigenvalues. Another section describes time response simulations. A time response for random white noise disturbance is available. The configurations and key equations used for each type of analysis, the restrictions that apply, the type of data required, and an example problem are described. One approach for integrating the design and analysis tools is also presented.

  13. Conformal polishing approach: Tool footprint analysis

    Directory of Open Access Journals (Sweden)

    José A Dieste

    2016-02-01

    Full Text Available Polishing process is one of the most critical manufacturing processes during a metal part production because it determines the final quality of the product. Free-form surface polishing is a handmade process with lots of rejected parts, scrap generation and time and energy consumption. Two different research lines are being developed: prediction models of the final surface quality parameters and an analysis of the amount of material removed depending on the polishing parameters to predict the tool footprint during the polishing task. This research lays the foundations for a future automatic conformal polishing system. It is based on rotational and translational tool with dry abrasive in the front mounted at the end of a robot. A tool to part concept is used, useful for large or heavy workpieces. Results are applied on different curved parts typically used in tooling industry, aeronautics or automotive. A mathematical model has been developed to predict the amount of material removed in function of polishing parameters. Model has been fitted for different abrasives and raw materials. Results have shown deviations under 20% that implies a reliable and controllable process. Smaller amount of material can be removed in controlled areas of a three-dimensional workpiece.

  14. BBAT: Bunch and bucket analysis tool

    International Nuclear Information System (INIS)

    Deng, D.P.

    1995-01-01

    BBAT is written to meet the need of an interactive graphical tool to explore the longitudinal phase space. It is driven for testing new ideas or new tricks quickly. It is especially suitable for machine physicists or operation staff as well both in the control room during machine studies or off-line to analyze the data. The heart of the package contains a set of c-routines to do the number crunching. The graphics part is wired with scripting language tcl/tk and BLT. The c-routines are general enough that one can write new applications such as animation of the bucket as a machine parameter varies via a sliding scale. BBAT deals with single rf system. For double rf system, one can use Dr. BBAT, which stands for Double rf Bunch and Bucket Analysis Tool. One usage of Dr. BBAT is to visualize the process of bunch coalescing and flat bunch creation

  15. SIMONE: Tool for Data Analysis and Simulation

    International Nuclear Information System (INIS)

    Chudoba, V.; Hnatio, B.; Sharov, P.; Papka, Paul

    2013-06-01

    SIMONE is a software tool based on the ROOT Data Analysis Framework and developed in collaboration of FLNR JINR and iThemba LABS. It is intended for physicists planning experiments and analysing experimental data. The goal of the SIMONE framework is to provide a flexible system, user friendly, efficient and well documented. It is intended for simulation of a wide range of Nuclear Physics experiments. The most significant conditions and physical processes can be taken into account during simulation of the experiment. The user can create his own experimental setup through the access of predefined detector geometries. Simulated data is made available in the same format as for the real experiment for identical analysis of both experimental and simulated data. Significant time reduction is expected during experiment planning and data analysis. (authors)

  16. Enhancement of Local Climate Analysis Tool

    Science.gov (United States)

    Horsfall, F. M.; Timofeyeva, M. M.; Dutton, J.

    2012-12-01

    The National Oceanographic and Atmospheric Administration (NOAA) National Weather Service (NWS) will enhance its Local Climate Analysis Tool (LCAT) to incorporate specific capabilities to meet the needs of various users including energy, health, and other communities. LCAT is an online interactive tool that provides quick and easy access to climate data and allows users to conduct analyses at the local level such as time series analysis, trend analysis, compositing, correlation and regression techniques, with others to be incorporated as needed. LCAT uses principles of Artificial Intelligence in connecting human and computer perceptions on application of data and scientific techniques in multiprocessing simultaneous users' tasks. Future development includes expanding the type of data currently imported by LCAT (historical data at stations and climate divisions) to gridded reanalysis and General Circulation Model (GCM) data, which are available on global grids and thus will allow for climate studies to be conducted at international locations. We will describe ongoing activities to incorporate NOAA Climate Forecast System (CFS) reanalysis data (CFSR), NOAA model output data, including output from the National Multi Model Ensemble Prediction System (NMME) and longer term projection models, and plans to integrate LCAT into the Earth System Grid Federation (ESGF) and its protocols for accessing model output and observational data to ensure there is no redundancy in development of tools that facilitate scientific advancements and use of climate model information in applications. Validation and inter-comparison of forecast models will be included as part of the enhancement to LCAT. To ensure sustained development, we will investigate options for open sourcing LCAT development, in particular, through the University Corporation for Atmospheric Research (UCAR).

  17. Setup Analysis: Combining SMED with Other Tools

    Directory of Open Access Journals (Sweden)

    Stadnicka Dorota

    2015-02-01

    Full Text Available The purpose of this paper is to propose the methodology for the setup analysis, which can be implemented mainly in small and medium enterprises which are not convinced to implement the setups development. The methodology was developed after the research which determined the problem. Companies still have difficulties with a long setup time. Many of them do nothing to decrease this time. A long setup is not a sufficient reason for companies to undertake any actions towards the setup time reduction. To encourage companies to implement SMED it is essential to make some analyses of changeovers in order to discover problems. The methodology proposed can really encourage the management to take a decision about the SMED implementation, and that was verified in a production company. The setup analysis methodology is made up of seven steps. Four of them concern a setups analysis in a chosen area of a company, such as a work stand which is a bottleneck with many setups. The goal is to convince the management to begin actions concerning the setups improvement. The last three steps are related to a certain setup and, there, the goal is to reduce a setup time and the risk of problems which can appear during the setup. In this paper, the tools such as SMED, Pareto analysis, statistical analysis, FMEA and other were used.

  18. Medical decision making tools: Bayesian analysis and ROC analysis

    International Nuclear Information System (INIS)

    Lee, Byung Do

    2006-01-01

    During the diagnostic process of the various oral and maxillofacial lesions, we should consider the following: 'When should we order diagnostic tests? What tests should be ordered? How should we interpret the results clinically? And how should we use this frequently imperfect information to make optimal medical decision?' For the clinicians to make proper judgement, several decision making tools are suggested. This article discusses the concept of the diagnostic accuracy (sensitivity and specificity values) with several decision making tools such as decision matrix, ROC analysis and Bayesian analysis. The article also explain the introductory concept of ORAD program

  19. Reversion of the Arabidopsis rpn12a-1 exon-trap mutation by an intragenic suppressor that weakens the chimeric 5’ splice site [v2; ref status: indexed, http://f1000r.es/18y

    Directory of Open Access Journals (Sweden)

    Jasmina Kurepa

    2013-06-01

    Full Text Available Background: In the Arabidopsis 26S proteasome mutant rpn12a-1, an exon-trap T-DNA is inserted 531 base pairs downstream of the RPN12a STOP codon. We have previously shown that this insertion activates a STOP codon-associated latent 5' splice site that competes with the polyadenylation signal during processing of the pre-mRNA. As a result of this dual input from splicing and polyadenylation in the rpn12a-1 mutant, two RPN12a transcripts are produced and they encode the wild-type RPN12a and a chimeric RPN12a-NPTII protein. Both proteins form complexes with other proteasome subunits leading to the formation of wild-type and mutant proteasome versions. The net result of this heterogeneity of proteasome particles is a reduction of total cellular proteasome activity. One of the consequences of reduced proteasomal activity is decreased sensitivity to the major plant hormone cytokinin. Methods: We performed ethyl methanesulfonate mutagenesis of rpn12a-1 and isolated revertants with wild-type cytokinin sensitivity. Results: We describe the isolation and analyses of suppressor of rpn12a-1 (sor1. The sor1 mutation is intragenic and located at the fifth position of the chimeric intron. This mutation weakens the activated 5' splice site associated with the STOP codon and tilts the processing of the RPN12a mRNA back towards polyadenylation. Conclusions: These results validate our earlier interpretation of the unusual nature of the rpn12a-1 mutation. Furthermore, the data show that optimal 26S proteasome activity requires RPN12a accumulation beyond a critical threshold. Finally, this finding reinforces our previous conclusion that proteasome function is critical for the cytokinin-dependent regulation of plant growth.

  20. Suppression of HPV-16 late L1 5′-splice site SD3632 by binding of hnRNP D proteins and hnRNP A2/B1 to upstream AUAGUA RNA motifs

    Science.gov (United States)

    Li, Xiaoze; Johansson, Cecilia; Glahder, Jacob; Mossberg, Ann-Kristin; Schwartz, Stefan

    2013-01-01

    Human papillomavirus type 16 (HPV-16) 5′-splice site SD3632 is used exclusively to produce late L1 mRNAs. We identified a 34-nt splicing inhibitory element located immediately upstream of HPV-16 late 5′-splice site SD3632. Two AUAGUA motifs located in these 34 nt inhibited SD3632. Two nucleotide substitutions in each of the HPV-16 specific AUAGUA motifs alleviated splicing inhibition and induced late L1 mRNA production from episomal forms of the HPV-16 genome in primary human keratinocytes. The AUAGUA motifs bind specifically not only to the heterogeneous nuclear RNP (hnRNP) D family of RNA-binding proteins including hnRNP D/AUF, hnRNP DL and hnRNP AB but also to hnRNP A2/B1. Knock-down of these proteins induced HPV-16 late L1 mRNA expression, and overexpression of hnRNP A2/B1, hnRNP AB, hnRNP DL and the two hnRNP D isoforms hnRNP D37 and hnRNP D40 further suppressed L1 mRNA expression. This inhibition may allow HPV-16 to hide from the immune system and establish long-term persistent infections with enhanced risk at progressing to cancer. There is an inverse correlation between expression of hnRNP D proteins and hnRNP A2/B1 and HPV-16 L1 production in the cervical epithelium, as well as in cervical cancer, supporting the conclusion that hnRNP D proteins and A2/B1 inhibit HPV-16 L1 mRNA production. PMID:24013563

  1. Standardised risk analysis as a communication tool

    International Nuclear Information System (INIS)

    Pluess, Ch.; Montanarini, M.; Bernauer, M.

    1998-01-01

    Full text of publication follows: several European countries require a risk analysis for the production, storage or transport a dangerous goods. This requirement imposes considerable administrative effort for some sectors of the industry. In order to minimize the effort of such studies, a generic risk analysis for an industrial sector proved to help. Standardised procedures can consequently be derived for efficient performance of the risk investigations. This procedure was successfully established in Switzerland for natural gas transmission lines and fossil fuel storage plants. The development process of the generic risk analysis involved an intense discussion between industry and authorities about methodology of assessment and the criteria of acceptance. This process finally led to scientific consistent modelling tools for risk analysis and to an improved communication from the industry to the authorities and the public. As a recent example, the Holland-Italy natural gas transmission pipeline is demonstrated, where this method was successfully employed. Although this pipeline traverses densely populated areas in Switzerland, using this established communication method, the risk problems could be solved without delaying the planning process. (authors)

  2. PROMOTION OF PRODUCTS AND ANALYSIS OF MARKET OF POWER TOOLS

    Directory of Open Access Journals (Sweden)

    Sergey S. Rakhmanov

    2014-01-01

    Full Text Available The article describes the general situation of power tools on the market, both in Russia and in the world. A comparative analysis of competitors, market structure analysis of power tools, as well as assessment of competitiveness of some major product lines. Also the analysis methods of promotion used by companies selling tools, competitive analysis range Bosch, the leader in its segment, power tools available on the market in Russia.

  3. Automated Steel Cleanliness Analysis Tool (ASCAT)

    Energy Technology Data Exchange (ETDEWEB)

    Gary Casuccio (RJ Lee Group); Michael Potter (RJ Lee Group); Fred Schwerer (RJ Lee Group); Dr. Richard J. Fruehan (Carnegie Mellon University); Dr. Scott Story (US Steel)

    2005-12-30

    The objective of this study was to develop the Automated Steel Cleanliness Analysis Tool (ASCATTM) to permit steelmakers to evaluate the quality of the steel through the analysis of individual inclusions. By characterizing individual inclusions, determinations can be made as to the cleanliness of the steel. Understanding the complicating effects of inclusions in the steelmaking process and on the resulting properties of steel allows the steel producer to increase throughput, better control the process, reduce remelts, and improve the quality of the product. The ASCAT (Figure 1) is a steel-smart inclusion analysis tool developed around a customized next-generation computer controlled scanning electron microscopy (NG-CCSEM) hardware platform that permits acquisition of inclusion size and composition data at a rate never before possible in SEM-based instruments. With built-in customized ''intelligent'' software, the inclusion data is automatically sorted into clusters representing different inclusion types to define the characteristics of a particular heat (Figure 2). The ASCAT represents an innovative new tool for the collection of statistically meaningful data on inclusions, and provides a means of understanding the complicated effects of inclusions in the steel making process and on the resulting properties of steel. Research conducted by RJLG with AISI (American Iron and Steel Institute) and SMA (Steel Manufactures of America) members indicates that the ASCAT has application in high-grade bar, sheet, plate, tin products, pipes, SBQ, tire cord, welding rod, and specialty steels and alloys where control of inclusions, whether natural or engineered, are crucial to their specification for a given end-use. Example applications include castability of calcium treated steel; interstitial free (IF) degasser grade slag conditioning practice; tundish clogging and erosion minimization; degasser circulation and optimization; quality assessment

  4. Automated Steel Cleanliness Analysis Tool (ASCAT)

    International Nuclear Information System (INIS)

    Gary Casuccio; Michael Potter; Fred Schwerer; Richard J. Fruehan; Dr. Scott Story

    2005-01-01

    The objective of this study was to develop the Automated Steel Cleanliness Analysis Tool (ASCATTM) to permit steelmakers to evaluate the quality of the steel through the analysis of individual inclusions. By characterizing individual inclusions, determinations can be made as to the cleanliness of the steel. Understanding the complicating effects of inclusions in the steelmaking process and on the resulting properties of steel allows the steel producer to increase throughput, better control the process, reduce remelts, and improve the quality of the product. The ASCAT (Figure 1) is a steel-smart inclusion analysis tool developed around a customized next-generation computer controlled scanning electron microscopy (NG-CCSEM) hardware platform that permits acquisition of inclusion size and composition data at a rate never before possible in SEM-based instruments. With built-in customized ''intelligent'' software, the inclusion data is automatically sorted into clusters representing different inclusion types to define the characteristics of a particular heat (Figure 2). The ASCAT represents an innovative new tool for the collection of statistically meaningful data on inclusions, and provides a means of understanding the complicated effects of inclusions in the steel making process and on the resulting properties of steel. Research conducted by RJLG with AISI (American Iron and Steel Institute) and SMA (Steel Manufactures of America) members indicates that the ASCAT has application in high-grade bar, sheet, plate, tin products, pipes, SBQ, tire cord, welding rod, and specialty steels and alloys where control of inclusions, whether natural or engineered, are crucial to their specification for a given end-use. Example applications include castability of calcium treated steel; interstitial free (IF) degasser grade slag conditioning practice; tundish clogging and erosion minimization; degasser circulation and optimization; quality assessment/steel cleanliness; slab, billet

  5. Analysis of machining and machine tools

    CERN Document Server

    Liang, Steven Y

    2016-01-01

    This book delivers the fundamental science and mechanics of machining and machine tools by presenting systematic and quantitative knowledge in the form of process mechanics and physics. It gives readers a solid command of machining science and engineering, and familiarizes them with the geometry and functionality requirements of creating parts and components in today’s markets. The authors address traditional machining topics, such as: single and multiple point cutting processes grinding components accuracy and metrology shear stress in cutting cutting temperature and analysis chatter They also address non-traditional machining, such as: electrical discharge machining electrochemical machining laser and electron beam machining A chapter on biomedical machining is also included. This book is appropriate for advanced undergraduate and graduate mechani cal engineering students, manufacturing engineers, and researchers. Each chapter contains examples, exercises and their solutions, and homework problems that re...

  6. Method and tool for network vulnerability analysis

    Science.gov (United States)

    Swiler, Laura Painton [Albuquerque, NM; Phillips, Cynthia A [Albuquerque, NM

    2006-03-14

    A computer system analysis tool and method that will allow for qualitative and quantitative assessment of security attributes and vulnerabilities in systems including computer networks. The invention is based on generation of attack graphs wherein each node represents a possible attack state and each edge represents a change in state caused by a single action taken by an attacker or unwitting assistant. Edges are weighted using metrics such as attacker effort, likelihood of attack success, or time to succeed. Generation of an attack graph is accomplished by matching information about attack requirements (specified in "attack templates") to information about computer system configuration (contained in a configuration file that can be updated to reflect system changes occurring during the course of an attack) and assumed attacker capabilities (reflected in "attacker profiles"). High risk attack paths, which correspond to those considered suited to application of attack countermeasures given limited resources for applying countermeasures, are identified by finding "epsilon optimal paths."

  7. Cost analysis and estimating tools and techniques

    CERN Document Server

    Nussbaum, Daniel

    1990-01-01

    Changes in production processes reflect the technological advances permeat­ ing our products and services. U. S. industry is modernizing and automating. In parallel, direct labor is fading as the primary cost driver while engineering and technology related cost elements loom ever larger. Traditional, labor-based ap­ proaches to estimating costs are losing their relevance. Old methods require aug­ mentation with new estimating tools and techniques that capture the emerging environment. This volume represents one of many responses to this challenge by the cost analysis profession. The Institute of Cost Analysis (lCA) is dedicated to improving the effective­ ness of cost and price analysis and enhancing the professional competence of its members. We encourage and promote exchange of research findings and appli­ cations between the academic community and cost professionals in industry and government. The 1990 National Meeting in Los Angeles, jointly spo~sored by ICA and the National Estimating Society (NES),...

  8. Built Environment Analysis Tool: April 2013

    Energy Technology Data Exchange (ETDEWEB)

    Porter, C.

    2013-05-01

    This documentation describes the tool development. It was created to evaluate the effects of built environment scenarios on transportation energy and greenhouse gas (GHG) emissions. This documentation also provides guidance on how to apply the tool.

  9. Sustainability Tools Inventory Initial Gap Analysis

    Science.gov (United States)

    This report identifies a suite of tools that address a comprehensive set of community sustainability concerns. The objective is to discover whether "gaps" exist in the tool suite’s analytic capabilities. These tools address activities that significantly influence resource consu...

  10. THE SMALL BODY GEOPHYSICAL ANALYSIS TOOL

    Science.gov (United States)

    Bercovici, Benjamin; McMahon, Jay

    2017-10-01

    The Small Body Geophysical Analysis Tool (SBGAT) that we are developing aims at providing scientists and mission designers with a comprehensive, easy to use, open-source analysis tool. SBGAT is meant for seamless generation of valuable simulated data originating from small bodies shape models, combined with advanced shape-modification properties.The current status of SBGAT is as follows:The modular software architecture that was specified in the original SBGAT proposal was implemented in the form of two distinct packages: a dynamic library SBGAT Core containing the data structure and algorithm backbone of SBGAT, and SBGAT Gui which wraps the former inside a VTK, Qt user interface to facilitate user/data interaction. This modular development facilitates maintenance and addi- tion of new features. Note that SBGAT Core can be utilized independently from SBGAT Gui.SBGAT is presently being hosted on a GitHub repository owned by SBGAT’s main developer. This repository is public and can be accessed at https://github.com/bbercovici/SBGAT. Along with the commented code, one can find the code documentation at https://bbercovici.github.io/sbgat-doc/index.html. This code documentation is constently updated in order to reflect new functionalities.SBGAT’s user’s manual is available at https://github.com/bbercovici/SBGAT/wiki. This document contains a comprehensive tutorial indicating how to retrieve, compile and run SBGAT from scratch.Some of the upcoming development goals are listed hereafter. First, SBGAT's dynamics module will be extented: the PGM algorithm is the only type of analysis method currently implemented. Future work will therefore consists in broadening SBGAT’s capabilities with the Spherical Harmonics Expansion of the gravity field and the calculation of YORP coefficients. Second, synthetic measurements will soon be available within SBGAT. The software should be able to generate synthetic observations of different type (radar, lightcurve, point clouds

  11. Risk analysis as a decision tool

    International Nuclear Information System (INIS)

    Yadigaroglu, G.; Chakraborty, S.

    1985-01-01

    From 1983 - 1985 a lecture series entitled ''Risk-benefit analysis'' was held at the Swiss Federal Institute of Technology (ETH), Zurich, in cooperation with the Central Department for the Safety of Nuclear Installations of the Swiss Federal Agency of Energy Economy. In that setting the value of risk-oriented evaluation models as a decision tool in safety questions was discussed on a broad basis. Experts of international reputation from the Federal Republic of Germany, France, Canada, the United States and Switzerland have contributed to report in this joint volume on the uses of such models. Following an introductory synopsis on risk analysis and risk assessment the book deals with practical examples in the fields of medicine, nuclear power, chemistry, transport and civil engineering. Particular attention is paid to the dialogue between analysts and decision makers taking into account the economic-technical aspects and social values. The recent chemical disaster in the Indian city of Bhopal again signals the necessity of such analyses. All the lectures were recorded individually. (orig./HP) [de

  12. Parallel Enhancements of the General Mission Analysis Tool, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — The General Mission Analysis Tool (GMAT) is a state of the art spacecraft mission design tool under active development at NASA's Goddard Space Flight Center (GSFC)....

  13. Tool Wear Monitoring Using Time Series Analysis

    Science.gov (United States)

    Song, Dong Yeul; Ohara, Yasuhiro; Tamaki, Haruo; Suga, Masanobu

    A tool wear monitoring approach considering the nonlinear behavior of cutting mechanism caused by tool wear and/or localized chipping is proposed, and its effectiveness is verified through the cutting experiment and actual turning machining. Moreover, the variation in the surface roughness of the machined workpiece is also discussed using this approach. In this approach, the residual error between the actually measured vibration signal and the estimated signal obtained from the time series model corresponding to dynamic model of cutting is introduced as the feature of diagnosis. Consequently, it is found that the early tool wear state (i.e. flank wear under 40µm) can be monitored, and also the optimal tool exchange time and the tool wear state for actual turning machining can be judged by this change in the residual error. Moreover, the variation of surface roughness Pz in the range of 3 to 8µm can be estimated by the monitoring of the residual error.

  14. Ball Bearing Analysis with the ORBIS Tool

    Science.gov (United States)

    Halpin, Jacob D.

    2016-01-01

    Ball bearing design is critical to the success of aerospace mechanisms. Key bearing performance parameters, such as load capability, stiffness, torque, and life all depend on accurate determination of the internal load distribution. Hence, a good analytical bearing tool that provides both comprehensive capabilities and reliable results becomes a significant asset to the engineer. This paper introduces the ORBIS bearing tool. A discussion of key modeling assumptions and a technical overview is provided. Numerous validation studies and case studies using the ORBIS tool are presented. All results suggest the ORBIS code closely correlates to predictions on bearing internal load distributions, stiffness, deflection and stresses.

  15. Spacecraft Electrical Power System (EPS) generic analysis tools and techniques

    Science.gov (United States)

    Morris, Gladys M.; Sheppard, Mark A.

    1992-01-01

    An overview is provided of the analysis tools and techiques used in modeling the Space Station Freedom electrical power system, as well as future space vehicle power systems. The analysis capabilities of the Electrical Power System (EPS) are described and the EPS analysis tools are surveyed.

  16. Forensic analysis of video steganography tools

    Directory of Open Access Journals (Sweden)

    Thomas Sloan

    2015-05-01

    Full Text Available Steganography is the art and science of concealing information in such a way that only the sender and intended recipient of a message should be aware of its presence. Digital steganography has been used in the past on a variety of media including executable files, audio, text, games and, notably, images. Additionally, there is increasing research interest towards the use of video as a media for steganography, due to its pervasive nature and diverse embedding capabilities. In this work, we examine the embedding algorithms and other security characteristics of several video steganography tools. We show how all feature basic and severe security weaknesses. This is potentially a very serious threat to the security, privacy and anonymity of their users. It is important to highlight that most steganography users have perfectly legal and ethical reasons to employ it. Some common scenarios would include citizens in oppressive regimes whose freedom of speech is compromised, people trying to avoid massive surveillance or censorship, political activists, whistle blowers, journalists, etc. As a result of our findings, we strongly recommend ceasing any use of these tools, and to remove any contents that may have been hidden, and any carriers stored, exchanged and/or uploaded online. For many of these tools, carrier files will be trivial to detect, potentially compromising any hidden data and the parties involved in the communication. We finish this work by presenting our steganalytic results, that highlight a very poor current state of the art in practical video steganography tools. There is unfortunately a complete lack of secure and publicly available tools, and even commercial tools offer very poor security. We therefore encourage the steganography community to work towards the development of more secure and accessible video steganography tools, and make them available for the general public. The results presented in this work can also be seen as a useful

  17. Software reference for SaTool - a Tool for Structural Analysis of Automated Systems

    DEFF Research Database (Denmark)

    Lorentzen, Torsten; Blanke, Mogens

    2004-01-01

    This software reference details the functions of SaTool – a tool for structural analysis of technical systems. SaTool is intended used as part of an industrial systems design cycle. Structural analysis is a graph-based technique where principal relations between variables express the system’s...... of the graph. SaTool makes analysis of the structure graph to provide knowledge about fundamental properties of the system in normal and faulty conditions. Salient features of SaTool include rapid analysis of possibility to diagnose faults and ability to make autonomous recovery should faults occur........ The list of such variables and functional relations constitute the system’s structure graph. Normal operation means all functional relations are intact. Should faults occur, one or more functional relations cease to be valid. In a structure graph, this is seen as the disappearance of one or more nodes...

  18. A Novel Splice-Site Mutation in Angiotensin I-Converting Enzyme (ACE) Gene, c.3691+1G>A (IVS25+1G>A), Causes a Dramatic Increase in Circulating ACE through Deletion of the Transmembrane Anchor

    Science.gov (United States)

    Persu, Alexandre; Lambert, Michel; Deinum, Jaap; Cossu, Marta; de Visscher, Nathalie; Irenge, Leonid; Ambroise, Jerôme; Minon, Jean-Marc; Nesterovitch, Andrew B.; Churbanov, Alexander; Popova, Isolda A.; Danilov, Sergei M.; Danser, A. H. Jan; Gala, Jean-Luc

    2013-01-01

    Background Angiotensin-converting enzyme (ACE) (EC 4.15.1) metabolizes many biologically active peptides and plays a key role in blood pressure regulation and vascular remodeling. Elevated ACE levels are associated with different cardiovascular and respiratory diseases. Methods and Results Two Belgian families with a 8-16-fold increase in blood ACE level were incidentally identified. A novel heterozygous splice site mutation of intron 25 - IVS25+1G>A (c.3691+1G>A) - cosegregating with elevated plasma ACE was identified in both pedigrees. Messenger RNA analysis revealed that the mutation led to the retention of intron 25 and Premature Termination Codon generation. Subjects harboring the mutation were mostly normotensive, had no left ventricular hypertrophy or cardiovascular disease. The levels of renin-angiotensin-aldosterone system components in the mutated cases and wild-type controls were similar, both at baseline and after 50 mg captopril. Compared with non-affected members, quantification of ACE surface expression and shedding using flow cytometry assay of dendritic cells derived from peripheral blood monocytes of affected members, demonstrated a 50% decrease and 3-fold increase, respectively. Together with a dramatic increase in circulating ACE levels, these findings argue in favor of deletion of transmembrane anchor, leading to direct secretion of ACE out of cells. Conclusions We describe a novel mutation of the ACE gene associated with a major familial elevation of circulating ACE, without evidence of activation of the renin-angiotensin system, target organ damage or cardiovascular complications. These data are consistent with the hypothesis that membrane-bound ACE, rather than circulating ACE, is responsible for Angiotensin II generation and its cardiovascular consequences. PMID:23560051

  19. FDTD simulation tools for UWB antenna analysis.

    Energy Technology Data Exchange (ETDEWEB)

    Brocato, Robert Wesley

    2005-02-01

    This paper describes the development of a set of software tools useful for analyzing ultra-wideband (UWB) antennas and structures. These tools are used to perform finite difference time domain (FDTD) simulation of a conical antenna with continuous wave (CW) and UWB pulsed excitations. The antenna is analyzed using spherical coordinate-based FDTD equations that are derived from first principles. The simulation results for CW excitation are compared to simulation and measured results from published sources; the results for UWB excitation are new.

  20. FDTD simulation tools for UWB antenna analysis.

    Energy Technology Data Exchange (ETDEWEB)

    Brocato, Robert Wesley

    2004-12-01

    This paper describes the development of a set of software tools useful for analyzing ultra-wideband (UWB) antennas and structures. These tools are used to perform finite difference time domain (FDTD) simulation of a conical antenna with continuous wave (CW) and UWB pulsed excitations. The antenna is analyzed using spherical coordinate-based FDTD equations that are derived from first principles. The simulation results for CW excitation are compared to simulation and measured results from published sources; the results for UWB excitation are new.

  1. Tool Supported Analysis of Web Services Protocols

    DEFF Research Database (Denmark)

    Marques, Abinoam P.; Ravn, Anders Peter; Srba, Jiri

    2011-01-01

    We describe an abstract protocol model suitable for modelling of web services and other protocols communicating via unreliable, asynchronous communication channels. The model is supported by a tool chain where the first step translates tables with state/transition protocol descriptions, often used...... e.g. in the design of web services protocols, into an intermediate XML format. We further translate this format into a network of communicating state machines directly suitable for verification in the model checking tool UPPAAL. We introduce two types of communication media abstractions in order...

  2. A nucleotide substitution at the 5′ splice site of intron 1 of rice HEADING DATE 1 (HD1 gene homolog in foxtail millet, broadly found in landraces from Europe and Asia

    Directory of Open Access Journals (Sweden)

    Kenji Fukunaga

    2015-12-01

    Full Text Available We investigated genetic variation of a rice HEADING DATE 1(HD1 homolog in foxtail millet. First, we searched for a rice HD1 homolog in a foxtail millet genome sequence and designed primers to amplify the entire coding sequence of the gene. We compared full HD1 gene sequences of 11 accessions (including Yugu 1, a Chinese cultivar used for genome sequencing from various regions in Europe and Asia, found a nucleotide substitution at a putative splice site of intron 1, and designated the accessions with the nucleotide substitution as carrying a splicing variant. We verified by RT-PCR that this single nucleotide substitution causes aberrant splicing of intron 1. We investigated the geographical distribution of the splicing variant in 480 accessions of foxtail millet from various regions of Europe and Asia and part of Africa by dCAPS and found that the splicing variant is broadly distributed in Europe and Asia. Differences of heading times between accessions with wild type allele of the HD1 gene and those with the splicing variant allele were unclear. We also investigated variation in 13 accessions of ssp. viridis, the wild ancestor, and the results suggested that the wild type is predominant in the wild ancestor.

  3. SIMMER as a safety analysis tool

    International Nuclear Information System (INIS)

    Smith, L.L.; Bell, C.R.; Bohl, W.R.; Bott, T.F.; Dearing, J.F.; Luck, L.B.

    1982-01-01

    SIMMER has been used for numerous applications in fast reactor safety, encompassing both accident and experiment analysis. Recent analyses of transition-phase behavior in potential core disruptive accidents have integrated SIMMER testing with the accident analysis. Results of both the accident analysis and the verification effort are presented as a comprehensive safety analysis program

  4. 5D Task Analysis Visualization Tool Phase II, Phase II

    Data.gov (United States)

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

  5. 5D Task Analysis Visualization Tool, Phase I

    Data.gov (United States)

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

  6. Vehicle Technology Simulation and Analysis Tools | Transportation Research

    Science.gov (United States)

    Analysis Tools NREL developed the following modeling, simulation, and analysis tools to investigate novel design goals (e.g., fuel economy versus performance) to find cost-competitive solutions. ADOPT Vehicle Simulator to analyze the performance and fuel economy of conventional and advanced light- and

  7. FEAT - FAILURE ENVIRONMENT ANALYSIS TOOL (UNIX VERSION)

    Science.gov (United States)

    Pack, G.

    1994-01-01

    The Failure Environment Analysis Tool, FEAT, enables people to see and better understand the effects of failures in a system. FEAT uses digraph models to determine what will happen to a system if a set of failure events occurs and to identify the possible causes of a selected set of failures. Failures can be user-selected from either engineering schematic or digraph model graphics, and the effects or potential causes of the failures will be color highlighted on the same schematic or model graphic. As a design tool, FEAT helps design reviewers understand exactly what redundancies have been built into a system and where weaknesses need to be protected or designed out. A properly developed digraph will reflect how a system functionally degrades as failures accumulate. FEAT is also useful in operations, where it can help identify causes of failures after they occur. Finally, FEAT is valuable both in conceptual development and as a training aid, since digraphs can identify weaknesses in scenarios as well as hardware. Digraphs models for use with FEAT are generally built with the Digraph Editor, a Macintosh-based application which is distributed with FEAT. The Digraph Editor was developed specifically with the needs of FEAT users in mind and offers several time-saving features. It includes an icon toolbox of components required in a digraph model and a menu of functions for manipulating these components. It also offers FEAT users a convenient way to attach a formatted textual description to each digraph node. FEAT needs these node descriptions in order to recognize nodes and propagate failures within the digraph. FEAT users store their node descriptions in modelling tables using any word processing or spreadsheet package capable of saving data to an ASCII text file. From within the Digraph Editor they can then interactively attach a properly formatted textual description to each node in a digraph. Once descriptions are attached to them, a selected set of nodes can be

  8. Analysis of logging data from nuclear borehole tools

    International Nuclear Information System (INIS)

    Hovgaard, J.; Oelgaard, P.L.

    1989-12-01

    The processing procedure for logging data from a borehole of the Stenlille project of Dansk Naturgas A/S has been analysed. The tools considered in the analysis were an integral, natural-gamma tool, a neutron porosity tool, a gamma density tool and a caliper tool. It is believed that in most cases the processing procedure used by the logging company in the interpretation of the raw data is fully understood. An exception is the epithermal part of the neutron porosity tool where all data needed for an interpretation were not available. The analysis has shown that some parts of the interpretation procedure may not be consistent with the physical principle of the tools. (author)

  9. Nutrition screening tools: an analysis of the evidence.

    Science.gov (United States)

    Skipper, Annalynn; Ferguson, Maree; Thompson, Kyle; Castellanos, Victoria H; Porcari, Judy

    2012-05-01

    In response to questions about tools for nutrition screening, an evidence analysis project was developed to identify the most valid and reliable nutrition screening tools for use in acute care and hospital-based ambulatory care settings. An oversight group defined nutrition screening and literature search criteria. A trained analyst conducted structured searches of the literature for studies of nutrition screening tools according to predetermined criteria. Eleven nutrition screening tools designed to detect undernutrition in patients in acute care and hospital-based ambulatory care were identified. Trained analysts evaluated articles for quality using criteria specified by the American Dietetic Association's Evidence Analysis Library. Members of the oversight group assigned quality grades to the tools based on the quality of the supporting evidence, including reliability and validity data. One tool, the NRS-2002, received a grade I, and 4 tools-the Simple Two-Part Tool, the Mini-Nutritional Assessment-Short Form (MNA-SF), the Malnutrition Screening Tool (MST), and Malnutrition Universal Screening Tool (MUST)-received a grade II. The MST was the only tool shown to be both valid and reliable for identifying undernutrition in the settings studied. Thus, validated nutrition screening tools that are simple and easy to use are available for application in acute care and hospital-based ambulatory care settings.

  10. Structural analysis of ITER sub-assembly tools

    International Nuclear Information System (INIS)

    Nam, K.O.; Park, H.K.; Kim, D.J.; Ahn, H.J.; Lee, J.H.; Kim, K.K.; Im, K.; Shaw, R.

    2011-01-01

    The ITER Tokamak assembly tools are purpose-built assembly tools to complete the ITER Tokamak machine which includes the cryostat and the components contained therein. The sector sub-assembly tools descried in this paper are main assembly tools to assemble vacuum vessel, thermal shield and toroidal filed coils into a complete 40 o sector. The 40 o sector sub-assembly tools are composed of sector sub-assembly tool, including radial beam, vacuum vessel supports and mid-plane brace tools. These tools shall have sufficient strength to transport and handle heavy weight of the ITER Tokamak machine reached several hundred tons. Therefore these tools should be designed and analyzed to confirm both the strength and structural stability even in the case of conservative assumptions. To verify structural stabilities of the sector sub-assembly tools in terms of strength and deflection, ANSYS code was used for linear static analysis. The results of the analysis show that these tools are designed with sufficient strength and stiffness. The conceptual designs of these tools are briefly described in this paper also.

  11. Statistical methods for the forensic analysis of striated tool marks

    Energy Technology Data Exchange (ETDEWEB)

    Hoeksema, Amy Beth [Iowa State Univ., Ames, IA (United States)

    2013-01-01

    In forensics, fingerprints can be used to uniquely identify suspects in a crime. Similarly, a tool mark left at a crime scene can be used to identify the tool that was used. However, the current practice of identifying matching tool marks involves visual inspection of marks by forensic experts which can be a very subjective process. As a result, declared matches are often successfully challenged in court, so law enforcement agencies are particularly interested in encouraging research in more objective approaches. Our analysis is based on comparisons of profilometry data, essentially depth contours of a tool mark surface taken along a linear path. In current practice, for stronger support of a match or non-match, multiple marks are made in the lab under the same conditions by the suspect tool. We propose the use of a likelihood ratio test to analyze the difference between a sample of comparisons of lab tool marks to a field tool mark, against a sample of comparisons of two lab tool marks. Chumbley et al. (2010) point out that the angle of incidence between the tool and the marked surface can have a substantial impact on the tool mark and on the effectiveness of both manual and algorithmic matching procedures. To better address this problem, we describe how the analysis can be enhanced to model the effect of tool angle and allow for angle estimation for a tool mark left at a crime scene. With sufficient development, such methods may lead to more defensible forensic analyses.

  12. The physics analysis tools project for the ATLAS experiment

    International Nuclear Information System (INIS)

    Lenzi, Bruno

    2012-01-01

    The Large Hadron Collider is expected to start colliding proton beams in 2009. The enormous amount of data produced by the ATLAS experiment (≅1 PB per year) will be used in searches for the Higgs boson and Physics beyond the standard model. In order to meet this challenge, a suite of common Physics Analysis Tools has been developed as part of the Physics Analysis software project. These tools run within the ATLAS software framework, ATHENA, covering a wide range of applications. There are tools responsible for event selection based on analysed data and detector quality information, tools responsible for specific physics analysis operations including data quality monitoring and physics validation, and complete analysis tool-kits (frameworks) with the goal to aid the physicist to perform his analysis hiding the details of the ATHENA framework. (authors)

  13. Graphical Acoustic Liner Design and Analysis Tool

    Science.gov (United States)

    Howerton, Brian M. (Inventor); Jones, Michael G. (Inventor)

    2016-01-01

    An interactive liner design and impedance modeling tool comprises software utilized to design acoustic liners for use in constrained spaces, both regularly and irregularly shaped. A graphical user interface allows the acoustic channel geometry to be drawn in a liner volume while the surface impedance calculations are updated and displayed in real-time. A one-dimensional transmission line model may be used as the basis for the impedance calculations.

  14. A novel single nucleotide splice site mutation in FHL1 confirms an Emery-Dreifuss plus phenotype with pulmonary artery hypoplasia and facial dysmorphology

    NARCIS (Netherlands)

    Pen, A.E.; Nyegaard, M.; Fang, M.; Jiang, H.; Christensen, R.; Molgaard, H.; Andersen, H.; Ulhoi, B.P.; Ostergaard, J.R.; Vaeth, S.; Sommerlund, M.; Brouwer, A.P.M. de; Zhang, X.; Jensen, U.B.

    2015-01-01

    We describe a Danish family with an, until recently, unknown X-linked disease with muscular dystrophy (MD), facial dysmorphology and pulmonary artery hypoplasia. One patient died suddenly before age 20 and another was resuscitated from cardiac arrest at the age of 28. Linkage analysis pointed to a

  15. Software Users Manual (SUM): Extended Testability Analysis (ETA) Tool

    Science.gov (United States)

    Maul, William A.; Fulton, Christopher E.

    2011-01-01

    This software user manual describes the implementation and use the Extended Testability Analysis (ETA) Tool. The ETA Tool is a software program that augments the analysis and reporting capabilities of a commercial-off-the-shelf (COTS) testability analysis software package called the Testability Engineering And Maintenance System (TEAMS) Designer. An initial diagnostic assessment is performed by the TEAMS Designer software using a qualitative, directed-graph model of the system being analyzed. The ETA Tool utilizes system design information captured within the diagnostic model and testability analysis output from the TEAMS Designer software to create a series of six reports for various system engineering needs. The ETA Tool allows the user to perform additional studies on the testability analysis results by determining the detection sensitivity to the loss of certain sensors or tests. The ETA Tool was developed to support design and development of the NASA Ares I Crew Launch Vehicle. The diagnostic analysis provided by the ETA Tool was proven to be valuable system engineering output that provided consistency in the verification of system engineering requirements. This software user manual provides a description of each output report generated by the ETA Tool. The manual also describes the example diagnostic model and supporting documentation - also provided with the ETA Tool software release package - that were used to generate the reports presented in the manual

  16. Surrogate Analysis and Index Developer (SAID) tool

    Science.gov (United States)

    Domanski, Marian M.; Straub, Timothy D.; Landers, Mark N.

    2015-10-01

    The use of acoustic and other parameters as surrogates for suspended-sediment concentrations (SSC) in rivers has been successful in multiple applications across the Nation. Tools to process and evaluate the data are critical to advancing the operational use of surrogates along with the subsequent development of regression models from which real-time sediment concentrations can be made available to the public. Recent developments in both areas are having an immediate impact on surrogate research and on surrogate monitoring sites currently (2015) in operation.

  17. A Lexical Analysis Tool with Ambiguity Support

    OpenAIRE

    Quesada, Luis; Berzal, Fernando; Cortijo, Francisco J.

    2012-01-01

    Lexical ambiguities naturally arise in languages. We present Lamb, a lexical analyzer that produces a lexical analysis graph describing all the possible sequences of tokens that can be found within the input string. Parsers can process such lexical analysis graphs and discard any sequence of tokens that does not produce a valid syntactic sentence, therefore performing, together with Lamb, a context-sensitive lexical analysis in lexically-ambiguous language specifications.

  18. Time Analysis: Still an Important Accountability Tool.

    Science.gov (United States)

    Fairchild, Thomas N.; Seeley, Tracey J.

    1994-01-01

    Reviews benefits to school counselors of conducting a time analysis. Describes time analysis system that authors have used, including case illustration of how authors used data to effect counseling program changes. System described followed process outlined by Fairchild: identifying services, devising coding system, keeping records, synthesizing…

  19. STARS software tool for analysis of reliability and safety

    International Nuclear Information System (INIS)

    Poucet, A.; Guagnini, E.

    1989-01-01

    This paper reports on the STARS (Software Tool for the Analysis of Reliability and Safety) project aims at developing an integrated set of Computer Aided Reliability Analysis tools for the various tasks involved in systems safety and reliability analysis including hazard identification, qualitative analysis, logic model construction and evaluation. The expert system technology offers the most promising perspective for developing a Computer Aided Reliability Analysis tool. Combined with graphics and analysis capabilities, it can provide a natural engineering oriented environment for computer assisted reliability and safety modelling and analysis. For hazard identification and fault tree construction, a frame/rule based expert system is used, in which the deductive (goal driven) reasoning and the heuristic, applied during manual fault tree construction, is modelled. Expert system can explain their reasoning so that the analyst can become aware of the why and the how results are being obtained. Hence, the learning aspect involved in manual reliability and safety analysis can be maintained and improved

  20. JAVA based LCD Reconstruction and Analysis Tools

    International Nuclear Information System (INIS)

    Bower, G.

    2004-01-01

    We summarize the current status and future developments of the North American Group's Java-based system for studying physics and detector design issues at a linear collider. The system is built around Java Analysis Studio (JAS) an experiment-independent Java-based utility for data analysis. Although the system is an integrated package running in JAS, many parts of it are also standalone Java utilities

  1. Java based LCD reconstruction and analysis tools

    International Nuclear Information System (INIS)

    Bower, Gary; Cassell, Ron; Graf, Norman; Johnson, Tony; Ronan, Mike

    2001-01-01

    We summarize the current status and future developments of the North American Group's Java-based system for studying physics and detector design issues at a linear collider. The system is built around Java Analysis Studio (JAS) an experiment-independent Java-based utility for data analysis. Although the system is an integrated package running in JAS, many parts of it are also standalone Java utilities

  2. Using a minigene approach to characterize a novel splice site mutation in human F7 gene causing inherited factor VII deficiency in a Chinese pedigree.

    Science.gov (United States)

    Yu, T; Wang, X; Ding, Q; Fu, Q; Dai, J; Lu, Y; Xi, X; Wang, H

    2009-11-01

    Factor VII deficiency which transmitted as an autosomal recessive disorder is a rare haemorrhagic condition. The aim of this study was to identify the molecular genetic defect and determine its functional consequences in a Chinese pedigree with FVII deficiency. The proband was diagnosed as inherited coagulation FVII deficiency by reduced plasma levels of FVII activity (4.4%) and antigen (38.5%). All nine exons and their flanking sequence of F7 gene were amplified by polymerase chain reaction (PCR) for the proband and the PCR products were directly sequenced. The compound heterozygous mutations of F7 (NM_000131.3) c.572-1G>A and F7 (NM_000131.3) c.1165T>G; p.Cys389Gly were identified in the proband's F7 gene. To investigate the splicing patterns associated with F7 c.572-1G>A, ectopic transcripts in leucocytes of the proband were analyzed. F7 minigenes, spanning from intron 4 to intron 7 and carrying either an A or a G at position -1 of intron 5, were constructed and transiently transfected into human embryonic kidney (HEK) 293T cells, followed by RT-PCR analysis. The aberrant transcripts from the F7 c.572-1G>A mutant allele were not detected by ectopic transcription study. Sequencing of the RT-PCR products from the mutant transfectant demonstrated the production of an erroneously spliced mRNA with exon 6 skipping, whereas a normal splicing occurred in the wide type transfectant. The aberrant mRNA produced from the F7 c.572-1G>A mutant allele is responsible for the factor VII deficiency in this pedigree.

  3. Tools and Algorithms for the Construction and Analysis of Systems

    DEFF Research Database (Denmark)

    This book constitutes the refereed proceedings of the 10th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, TACAS 2004, held in Barcelona, Spain in March/April 2004. The 37 revised full papers and 6 revised tool demonstration papers presented were car...

  4. Making Culturally Responsive Mathematics Teaching Explicit: A Lesson Analysis Tool

    Science.gov (United States)

    Aguirre, Julia M.; Zavala, Maria del Rosario

    2013-01-01

    In the United States, there is a need for pedagogical tools that help teachers develop essential pedagogical content knowledge and practices to meet the mathematical education needs of a growing culturally and linguistically diverse student population. In this article, we introduce an innovative lesson analysis tool that focuses on integrating…

  5. Lightweight object oriented structure analysis: tools for building tools to analyze molecular dynamics simulations.

    Science.gov (United States)

    Romo, Tod D; Leioatts, Nicholas; Grossfield, Alan

    2014-12-15

    LOOS (Lightweight Object Oriented Structure-analysis) is a C++ library designed to facilitate making novel tools for analyzing molecular dynamics simulations by abstracting out the repetitive tasks, allowing developers to focus on the scientifically relevant part of the problem. LOOS supports input using the native file formats of most common biomolecular simulation packages, including CHARMM, NAMD, Amber, Tinker, and Gromacs. A dynamic atom selection language based on the C expression syntax is included and is easily accessible to the tool-writer. In addition, LOOS is bundled with over 140 prebuilt tools, including suites of tools for analyzing simulation convergence, three-dimensional histograms, and elastic network models. Through modern C++ design, LOOS is both simple to develop with (requiring knowledge of only four core classes and a few utility functions) and is easily extensible. A python interface to the core classes is also provided, further facilitating tool development. © 2014 Wiley Periodicals, Inc.

  6. Game data analysis tools and methods

    CERN Document Server

    Coupart, Thibault

    2013-01-01

    This book features an introduction to the basic theoretical tenets of data analysis from a game developer's point of view, as well as a practical guide to performing gameplay analysis on a real-world game.This book is ideal for video game developers who want to try and experiment with the game analytics approach for their own productions. It will provide a good overview of the themes you need to pay attention to, and will pave the way for success. Furthermore, the book also provides a wide range of concrete examples that will be useful for any game data analysts or scientists who want to impro

  7. Bayesian data analysis tools for atomic physics

    Science.gov (United States)

    Trassinelli, Martino

    2017-10-01

    We present an introduction to some concepts of Bayesian data analysis in the context of atomic physics. Starting from basic rules of probability, we present the Bayes' theorem and its applications. In particular we discuss about how to calculate simple and joint probability distributions and the Bayesian evidence, a model dependent quantity that allows to assign probabilities to different hypotheses from the analysis of a same data set. To give some practical examples, these methods are applied to two concrete cases. In the first example, the presence or not of a satellite line in an atomic spectrum is investigated. In the second example, we determine the most probable model among a set of possible profiles from the analysis of a statistically poor spectrum. We show also how to calculate the probability distribution of the main spectral component without having to determine uniquely the spectrum modeling. For these two studies, we implement the program Nested_fit to calculate the different probability distributions and other related quantities. Nested_fit is a Fortran90/Python code developed during the last years for analysis of atomic spectra. As indicated by the name, it is based on the nested algorithm, which is presented in details together with the program itself.

  8. ResStock Analysis Tool | Buildings | NREL

    Science.gov (United States)

    Energy and Cost Savings for U.S. Homes Contact Eric Wilson to learn how ResStock can benefit your approach to large-scale residential energy analysis by combining: Large public and private data sources uncovered $49 billion in potential annual utility bill savings through cost-effective energy efficiency

  9. LEAP2000: tools for sustainable energy analysis

    Energy Technology Data Exchange (ETDEWEB)

    Heaps, C.; Lazarus, M.; Raskin, P. [SEU-Boston, Boston, MA (USA)

    2000-09-01

    LEAP2000 is a collaborative initiative, led by the Boston Center for the Stockholm Environment Institute, to create a new suite of analytical software and databases for integrated energy-environment analysis. The LEAP2000 software and the Technology and Environmental Database (TED) are described. 5 refs., 5 figs.

  10. Spreadsheet as a tool of engineering analysis

    International Nuclear Information System (INIS)

    Becker, M.

    1985-01-01

    In engineering analysis, problems tend to be categorized into those that can be done by hand and those that require the computer for solution. The advent of personal computers, and in particular, the advent of spreadsheet software, blurs this distinction, creating an intermediate category of problems appropriate for use with interactive personal computing

  11. SaTool - a Software Tool for Structural Analysis of Complex Automation Systems

    DEFF Research Database (Denmark)

    Blanke, Mogens; Lorentzen, Torsten

    2006-01-01

    The paper introduces SaTool, a tool for structural analysis, the use of the Matlab (R)-based implementation is presented and special features are introduced, which were motivated by industrial users. Salient features of tool are presented, including the ability to specify the behavior of a complex...... system at a high level of functional abstraction, analyze single and multiple fault scenarios and automatically generate parity relations for diagnosis for the system in normal and impaired conditions. User interface and algorithmic details are presented....

  12. User-friendly Tool for Power Flow Analysis and Distributed ...

    African Journals Online (AJOL)

    Akorede

    AKOREDE et al: TOOL FOR POWER FLOW ANALYSIS AND DISTRIBUTED GENERATION OPTIMISATION. 23 ... greenhouse gas emissions and the current deregulation of electric energy ..... Visual composition and temporal behaviour of GUI.

  13. Generalized Aliasing as a Basis for Program Analysis Tools

    National Research Council Canada - National Science Library

    O'Callahan, Robert

    2000-01-01

    .... This dissertation describes the design of a system, Ajax, that addresses this problem by using semantics-based program analysis as the basis for a number of different tools to aid Java programmers...

  14. Logical Framework Analysis (LFA): An Essential Tool for Designing ...

    African Journals Online (AJOL)

    Logical Framework Analysis (LFA): An Essential Tool for Designing Agricultural Project ... overview of the process and the structure of the Logical Framework Matrix or Logframe, derivable from it, ..... System Approach to Managing The Project.

  15. Surface Operations Data Analysis and Adaptation Tool, Phase II

    Data.gov (United States)

    National Aeronautics and Space Administration — This effort undertook the creation of a Surface Operations Data Analysis and Adaptation (SODAA) tool to store data relevant to airport surface research and...

  16. SBOAT: A Stochastic BPMN Analysis and Optimisation Tool

    DEFF Research Database (Denmark)

    Herbert, Luke Thomas; Hansen, Zaza Nadja Lee; Jacobsen, Peter

    2014-01-01

    In this paper we present a description of a tool development framework, called SBOAT, for the quantitative analysis of graph based process modelling languages based upon the Business Process Modelling and Notation (BPMN) language, extended with intention preserving stochastic branching and parame......In this paper we present a description of a tool development framework, called SBOAT, for the quantitative analysis of graph based process modelling languages based upon the Business Process Modelling and Notation (BPMN) language, extended with intention preserving stochastic branching...

  17. Application of parameters space analysis tools for empirical model validation

    Energy Technology Data Exchange (ETDEWEB)

    Paloma del Barrio, E. [LEPT-ENSAM UMR 8508, Talence (France); Guyon, G. [Electricite de France, Moret-sur-Loing (France)

    2004-01-01

    A new methodology for empirical model validation has been proposed in the framework of the Task 22 (Building Energy Analysis Tools) of the International Energy Agency. It involves two main steps: checking model validity and diagnosis. Both steps, as well as the underlying methods, have been presented in the first part of the paper. In this part, they are applied for testing modelling hypothesis in the framework of the thermal analysis of an actual building. Sensitivity analysis tools have been first used to identify the parts of the model that can be really tested on the available data. A preliminary diagnosis is then supplied by principal components analysis. Useful information for model behaviour improvement has been finally obtained by optimisation techniques. This example of application shows how model parameters space analysis is a powerful tool for empirical validation. In particular, diagnosis possibilities are largely increased in comparison with residuals analysis techniques. (author)

  18. Data Analysis with Open Source Tools

    CERN Document Server

    Janert, Philipp

    2010-01-01

    Collecting data is relatively easy, but turning raw information into something useful requires that you know how to extract precisely what you need. With this insightful book, intermediate to experienced programmers interested in data analysis will learn techniques for working with data in a business environment. You'll learn how to look at data to discover what it contains, how to capture those ideas in conceptual models, and then feed your understanding back into the organization through business plans, metrics dashboards, and other applications. Along the way, you'll experiment with conce

  19. Advanced tools for in vivo skin analysis.

    Science.gov (United States)

    Cal, Krzysztof; Zakowiecki, Daniel; Stefanowska, Justyna

    2010-05-01

    A thorough examination of the skin is essential for accurate disease diagnostics, evaluation of the effectiveness of topically applied drugs and the assessment of the results of dermatologic surgeries such as skin grafts. Knowledge of skin parameters is also important in the cosmetics industry, where the effects of skin care products are evaluated. Due to significant progress in the electronics and computer industries, sophisticated analytic devices are increasingly available for day-to-day diagnostics. The aim of this article is to review several advanced methods for in vivo skin analysis in humans: magnetic resonance imaging, electron paramagnetic resonance, laser Doppler flowmetry and time domain reflectometry. The molecular bases of these techniques are presented, and several interesting applications in the field are discussed. Methods for in vivo assessment of the biomechanical properties of human skin are also reviewed.

  20. NMR spectroscopy: a tool for conformational analysis

    International Nuclear Information System (INIS)

    Tormena, Claudio F.; Cormanich, Rodrigo A.; Rittner, Roberto; Freitas, Matheus P.

    2011-01-01

    The present review deals with the application of NMR data to the conformational analysis of simple organic compounds, together with other experimental methods like infrared spectroscopy and with theoretical calculations. Each sub-section describes the results for a group of compounds which belong to a given organic function like ketones, esters, etc. Studies of a single compound, even of special relevance, were excluded since the main goal of this review is to compare the results for a given function, where different substituents were used or small structural changes were introduced in the substrate, in an attempt to disclose their effects in the conformational equilibrium. Moreover, the huge amount of data available in the literature, on this research field, imposed some limitations which will be detailed in the Introduction, but it can be reminded in advance that these limitations include mostly the period when these results were published. (author)

  1. Pointer Analysis for JavaScript Programming Tools

    DEFF Research Database (Denmark)

    Feldthaus, Asger

    Tools that can assist the programmer with tasks, such as, refactoring or code navigation, have proven popular for Java, C#, and other programming languages. JavaScript is a widely used programming language, and its users could likewise benefit from such tools, but the dynamic nature of the language...... is an obstacle for the development of these. Because of this, tools for JavaScript have long remained ineffective compared to those for many other programming languages. Static pointer analysis can provide a foundation for more powerful tools, although the design of this analysis is itself a complicated endeavor....... In this work, we explore techniques for performing pointer analysis of JavaScript programs, and we find novel applications of these techniques. In particular, we demonstrate how these can be used for code navigation, automatic refactoring, semi-automatic refactoring of incomplete programs, and checking of type...

  2. Hydrogen Financial Analysis Scenario Tool (H2FAST). Web Tool User's Manual

    Energy Technology Data Exchange (ETDEWEB)

    Bush, B. [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Penev, M. [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Melaina, M. [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Zuboy, J. [Independent Consultant, Golden, CO (United States)

    2015-05-11

    The Hydrogen Financial Analysis Scenario Tool (H2FAST) provides a quick and convenient indepth financial analysis for hydrogen fueling stations. This manual describes how to use the H2FAST web tool, which is one of three H2FAST formats developed by the National Renewable Energy Laboratory (NREL). Although all of the formats are based on the same financial computations and conform to generally accepted accounting principles (FASAB 2014, Investopedia 2014), each format provides a different level of complexity and user interactivity.

  3. SECIMTools: a suite of metabolomics data analysis tools.

    Science.gov (United States)

    Kirpich, Alexander S; Ibarra, Miguel; Moskalenko, Oleksandr; Fear, Justin M; Gerken, Joseph; Mi, Xinlei; Ashrafi, Ali; Morse, Alison M; McIntyre, Lauren M

    2018-04-20

    Metabolomics has the promise to transform the area of personalized medicine with the rapid development of high throughput technology for untargeted analysis of metabolites. Open access, easy to use, analytic tools that are broadly accessible to the biological community need to be developed. While technology used in metabolomics varies, most metabolomics studies have a set of features identified. Galaxy is an open access platform that enables scientists at all levels to interact with big data. Galaxy promotes reproducibility by saving histories and enabling the sharing workflows among scientists. SECIMTools (SouthEast Center for Integrated Metabolomics) is a set of Python applications that are available both as standalone tools and wrapped for use in Galaxy. The suite includes a comprehensive set of quality control metrics (retention time window evaluation and various peak evaluation tools), visualization techniques (hierarchical cluster heatmap, principal component analysis, modular modularity clustering), basic statistical analysis methods (partial least squares - discriminant analysis, analysis of variance, t-test, Kruskal-Wallis non-parametric test), advanced classification methods (random forest, support vector machines), and advanced variable selection tools (least absolute shrinkage and selection operator LASSO and Elastic Net). SECIMTools leverages the Galaxy platform and enables integrated workflows for metabolomics data analysis made from building blocks designed for easy use and interpretability. Standard data formats and a set of utilities allow arbitrary linkages between tools to encourage novel workflow designs. The Galaxy framework enables future data integration for metabolomics studies with other omics data.

  4. Network Analysis Tools: from biological networks to clusters and pathways.

    Science.gov (United States)

    Brohée, Sylvain; Faust, Karoline; Lima-Mendez, Gipsi; Vanderstocken, Gilles; van Helden, Jacques

    2008-01-01

    Network Analysis Tools (NeAT) is a suite of computer tools that integrate various algorithms for the analysis of biological networks: comparison between graphs, between clusters, or between graphs and clusters; network randomization; analysis of degree distribution; network-based clustering and path finding. The tools are interconnected to enable a stepwise analysis of the network through a complete analytical workflow. In this protocol, we present a typical case of utilization, where the tasks above are combined to decipher a protein-protein interaction network retrieved from the STRING database. The results returned by NeAT are typically subnetworks, networks enriched with additional information (i.e., clusters or paths) or tables displaying statistics. Typical networks comprising several thousands of nodes and arcs can be analyzed within a few minutes. The complete protocol can be read and executed in approximately 1 h.

  5. Tool for efficient intermodulation analysis using conventional HB packages

    OpenAIRE

    Vannini, G.; Filicori, F.; Traverso, P.

    1999-01-01

    A simple and efficient approach is proposed for the intermodulation analysis of nonlinear microwave circuits. The algorithm, which is based on a very mild assumption about the frequency response of the linear part of the circuit, allows for a reduction in computing time and memory requirement. Moreover. It can be easily implemented using any conventional tool for harmonic-balance circuit analysis

  6. Gender analysis of use of participatory tools among extension workers

    African Journals Online (AJOL)

    (c2 = 0.833, p = 0.361; t = 0.737, p = 0.737, CC = 0.396) Participatory tools used by both male and female extension personnel include resource map, mobility map, transect map, focus group discussion, venn diagram, seasonal calendar, SWOT analysis, semistructured interview, daily activity schedule, resource analysis, ...

  7. A static analysis tool set for assembler code verification

    International Nuclear Information System (INIS)

    Dhodapkar, S.D.; Bhattacharjee, A.K.; Sen, Gopa

    1991-01-01

    Software Verification and Validation (V and V) is an important step in assuring reliability and quality of the software. The verification of program source code forms an important part of the overall V and V activity. The static analysis tools described here are useful in verification of assembler code. The tool set consists of static analysers for Intel 8086 and Motorola 68000 assembly language programs. The analysers examine the program source code and generate information about control flow within the program modules, unreachable code, well-formation of modules, call dependency between modules etc. The analysis of loops detects unstructured loops and syntactically infinite loops. Software metrics relating to size and structural complexity are also computed. This report describes the salient features of the design, implementation and the user interface of the tool set. The outputs generated by the analyser are explained using examples taken from some projects analysed by this tool set. (author). 7 refs., 17 figs

  8. Development of Visualization Tools for ZPPR-15 Analysis

    International Nuclear Information System (INIS)

    Lee, Min Jae; Kim, Sang Ji

    2014-01-01

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

  9. Interactive Construction Digital Tools With Real Time Analysis

    DEFF Research Database (Denmark)

    Klitgaard, Jens; Kirkegaard, Poul Henning

    2007-01-01

    . The aim of this research is to look into integrated digital design and analysis tools in order to find out if it is suited for use by architects and designers or only by specialists and technicians - and if not, then to look at what can be done to make them more available to architects and designers...... an architect-engineer or hybrid practitioner works simultaneously with both aesthetic and technical design requirements. In this paper the problem of a vague or not existing link between digital design tools, used by architects and designers, and the analysis tools developed by and for engineers is considered......The recent developments in computational design tools have evolved into a sometimes purely digital process which opens up for new perspectives and problems in the sketching process. One of the interesting possibilities lay within the hybrid practitioner- or architect-engineer approach, where...

  10. Analysis of Alternatives for Risk Assessment Methodologies and Tools

    Energy Technology Data Exchange (ETDEWEB)

    Nachtigal, Noel M. [Sandia National Lab. (SNL-CA), Livermore, CA (United States). System Analytics; Fruetel, Julia A. [Sandia National Lab. (SNL-CA), Livermore, CA (United States). Systems Research and Analysis; Gleason, Nathaniel J. [Sandia National Lab. (SNL-CA), Livermore, CA (United States). Systems Research and Analysis; Helms, Jovana [Sandia National Lab. (SNL-CA), Livermore, CA (United States). Systems Research and Analysis; Imbro, Dennis Raymond [Sandia National Lab. (SNL-CA), Livermore, CA (United States). Systems Research and Analysis; Sumner, Matthew C. [Sandia National Lab. (SNL-CA), Livermore, CA (United States). Systems Research and Analysis

    2013-10-01

    The purpose of this document is to provide a basic overview and understanding of risk assessment methodologies and tools from the literature and to assess the suitability of these methodologies and tools for cyber risk assessment. Sandia National Laboratories (SNL) performed this review in support of risk modeling activities performed for the Stakeholder Engagement and Cyber Infrastructure Resilience (SECIR) division of the Department of Homeland Security (DHS) Office of Cybersecurity and Communications (CS&C). The set of methodologies and tools covered in this document is not intended to be exhaustive; instead, it focuses on those that are commonly used in the risk assessment community. The classification of methodologies and tools was performed by a group of analysts with experience in risk analysis and cybersecurity, and the resulting analysis of alternatives has been tailored to address the needs of a cyber risk assessment.

  11. Tool Efficiency Analysis model research in SEMI industry

    Directory of Open Access Journals (Sweden)

    Lei Ma

    2018-01-01

    Full Text Available One of the key goals in SEMI industry is to improve equipment through put and ensure equipment production efficiency maximization. This paper is based on SEMI standards in semiconductor equipment control, defines the transaction rules between different tool states,and presents a TEA system model which is to analysis tool performance automatically based on finite state machine. The system was applied to fab tools and verified its effectiveness successfully, and obtained the parameter values used to measure the equipment performance, also including the advices of improvement.

  12. Tools and Algorithms for the Construction and Analysis of Systems

    DEFF Research Database (Denmark)

    This book constitutes the refereed proceedings of the 10th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, TACAS 2004, held in Barcelona, Spain in March/April 2004. The 37 revised full papers and 6 revised tool demonstration papers presented were...... carefully reviewed and selected from a total of 162 submissions. The papers are organized in topical sections on theorem proving, probabilistic model checking, testing, tools, explicit state and Petri nets, scheduling, constraint solving, timed systems, case studies, software, temporal logic, abstraction...

  13. Development of a climate data analysis tool (CDAT)

    Energy Technology Data Exchange (ETDEWEB)

    Marlais, S.M.

    1997-09-01

    The Climate Data Analysis Tool (CDAT) is designed to provide the Program for Climate Model Diagnosis and Intercomparison (PCMDI) at Lawrence Livermore National Laboratory, California, with the capabilities needed to analyze model data with little effort on the part of the scientist, while performing complex mathematical calculations, and graphically displaying the results. This computer software will meet the demanding need of climate scientists by providing the necessary tools to diagnose, validate, and intercompare large observational and global climate model datasets.

  14. Tools for voltage stability analysis, including a probabilistic approach

    Energy Technology Data Exchange (ETDEWEB)

    Vieira Filho, X; Martins, N; Bianco, A; Pinto, H J.C.P. [Centro de Pesquisas de Energia Eletrica (CEPEL), Rio de Janeiro, RJ (Brazil); Pereira, M V.F. [Power System Research (PSR), Inc., Rio de Janeiro, RJ (Brazil); Gomes, P; Santos, M.G. dos [ELETROBRAS, Rio de Janeiro, RJ (Brazil)

    1994-12-31

    This paper reviews some voltage stability analysis tools that are being used or envisioned for expansion and operational planning studies in the Brazilian system, as well as, their applications. The paper also shows that deterministic tools can be linked together in a probabilistic framework, so as to provide complementary help to the analyst in choosing the most adequate operation strategies, or the best planning solutions for a given system. (author) 43 refs., 8 figs., 8 tabs.

  15. Database tools for enhanced analysis of TMX-U data

    International Nuclear Information System (INIS)

    Stewart, M.E.; Carter, M.R.; Casper, T.A.; Meyer, W.H.; Perkins, D.E.; Whitney, D.M.

    1986-01-01

    A commercial database software package has been used to create several databases and tools that assist and enhance the ability of experimental physicists to analyze data from the Tandem Mirror Experiment-Upgrade (TMX-U) experiment. This software runs on a DEC-20 computer in M-Divisions's User Service Center at Lawrence Livermore National Laboratory (LLNL), where data can be analyzed off line from the main TMX-U acquisition computers. When combined with interactive data analysis programs, these tools provide the capability to do batch-style processing or interactive data analysis on the computers in the USC or the supercomputers of the National Magnetic Fusion Energy Computer Center (NMFECC) in addition to the normal processing done by the TMX-U acquisition system. One database tool provides highly reduced data for searching and correlation analysis of several diagnostic signals within a single shot or over many shots. A second database tool provides retrieval and storage of unreduced data for use in detailed analysis of one or more diagnostic signals. We will show how these database tools form the core of an evolving off-line data analysis environment on the USC computers

  16. Database tools for enhanced analysis of TMX-U data

    International Nuclear Information System (INIS)

    Stewart, M.E.; Carter, M.R.; Casper, T.A.; Meyer, W.H.; Perkins, D.E.; Whitney, D.M.

    1986-01-01

    A commercial database software package has been used to create several databases and tools that assist and enhance the ability of experimental physicists to analyze data from the Tandem Mirror Experiment-Upgrade (TMX-U) experiment. This software runs on a DEC-20 computer in M-Division's User Service Center at Lawrence Livermore National Laboratory (LLNL), where data can be analyzed offline from the main TMX-U acquisition computers. When combined with interactive data analysis programs, these tools provide the capability to do batch-style processing or interactive data analysis on the computers in the USC or the supercomputers of the National Magnetic Fusion Energy Computer Center (NMFECC) in addition to the normal processing done by the TMX-U acquisition system. One database tool provides highly reduced data for searching and correlation analysis of several diagnostic signals within a single shot or over many shots. A second database tool provides retrieval and storage of unreduced data for use in detailed analysis of one or more diagnostic signals. We will show how these database tools form the core of an evolving offline data analysis environment on the USC computers

  17. Analysis Tool Web Services from the EMBL-EBI.

    Science.gov (United States)

    McWilliam, Hamish; Li, Weizhong; Uludag, Mahmut; Squizzato, Silvano; Park, Young Mi; Buso, Nicola; Cowley, Andrew Peter; Lopez, Rodrigo

    2013-07-01

    Since 2004 the European Bioinformatics Institute (EMBL-EBI) has provided access to a wide range of databases and analysis tools via Web Services interfaces. This comprises services to search across the databases available from the EMBL-EBI and to explore the network of cross-references present in the data (e.g. EB-eye), services to retrieve entry data in various data formats and to access the data in specific fields (e.g. dbfetch), and analysis tool services, for example, sequence similarity search (e.g. FASTA and NCBI BLAST), multiple sequence alignment (e.g. Clustal Omega and MUSCLE), pairwise sequence alignment and protein functional analysis (e.g. InterProScan and Phobius). The REST/SOAP Web Services (http://www.ebi.ac.uk/Tools/webservices/) interfaces to these databases and tools allow their integration into other tools, applications, web sites, pipeline processes and analytical workflows. To get users started using the Web Services, sample clients are provided covering a range of programming languages and popular Web Service tool kits, and a brief guide to Web Services technologies, including a set of tutorials, is available for those wishing to learn more and develop their own clients. Users of the Web Services are informed of improvements and updates via a range of methods.

  18. Physics analysis tools for beauty physics in ATLAS

    International Nuclear Information System (INIS)

    Anastopoulos, C; Bouhova-Thacker, E; Catmore, J; Mora, L de; Dallison, S; Derue, F; Epp, B; Jussel, P; Kaczmarska, A; Radziewski, H v; Stahl, T; Reznicek, P

    2008-01-01

    The Large Hadron Collider experiments will search for physics phenomena beyond the Standard Model. Highly sensitive tests of beauty hadrons will represent an alternative approach to this research. The analysis of complex decay chains of the beauty hadrons have to efficiently extract the detector tracks made by these reactions and reject other events in order to make sufficiently precise measurement. This places severe demands on the software used to analyze the B-physics data. The ATLAS B-physics group has written a series of tools and algorithms for performing these tasks, to be run within the ATLAS offline software framework Athena. This paper describes this analysis suite, paying particular attention to mechanisms for handling combinatorics, interfaces to secondary vertex fitting packages, B-flavor tagging tools and finally Monte Carlo true information association to pursue simulation data in process of the software validations which is an important part of the development of the physics analysis tools

  19. Analysis of design tool attributes with regards to sustainability benefits

    Science.gov (United States)

    Zain, S.; Ismail, A. F.; Ahmad, Z.; Adesta, E. Y. T.

    2018-01-01

    The trend of global manufacturing competitiveness has shown a significant shift from profit and customer driven business to a more harmonious sustainability paradigm. This new direction, which emphasises the interests of three pillars of sustainability, i.e., social, economic and environment dimensions, has changed the ways products are designed. As a result, the roles of design tools in the product development stage of manufacturing in adapting to the new strategy are vital and increasingly challenging. The aim of this paper is to review the literature on the attributes of design tools with regards to the sustainability perspective. Four well-established design tools are selected, namely Quality Function Deployment (QFD), Failure Mode and Element Analysis (FMEA), Design for Six Sigma (DFSS) and Design for Environment (DfE). By analysing previous studies, the main attributes of each design tool and its benefits with respect to each sustainability dimension throughout four stages of product lifecycle are discussed. From this study, it is learnt that each of the design tools contributes to the three pillars of sustainability either directly or indirectly, but they are unbalanced and not holistic. Therefore, the prospective of improving and optimising the design tools is projected, and the possibility of collaboration between the different tools is discussed.

  20. Analysis and Transformation Tools for Constrained Horn Clause Verification

    DEFF Research Database (Denmark)

    Kafle, Bishoksan; Gallagher, John Patrick

    2014-01-01

    Several techniques and tools have been developed for verification of properties expressed as Horn clauses with constraints over a background theory (CHC). Current CHC verification tools implement intricate algorithms and are often limited to certain subclasses of CHC problems. Our aim in this work...... is to investigate the use of a combination of off-the-shelf techniques from the literature in analysis and transformation of Constraint Logic Programs (CLPs) to solve challenging CHC verification problems. We find that many problems can be solved using a combination of tools based on well-known techniques from...... abstract interpretation, semantics-preserving transformations, program specialisation and query-answer transformations. This gives insights into the design of automatic, more general CHC verification tools based on a library of components....

  1. Interactive exploratory data analysis tool in Alzheimer’s disease

    Directory of Open Access Journals (Sweden)

    Diana Furcila

    2015-04-01

    Thus, MorExAn provide us the possibility to relate histopathological data with neuropsychological and clinical variables. The aid of this interactive visualization tool brings us the possibility to find unexpected conclusions beyond the insight provided by simple statistics analysis, as well as to improve neuroscientists’ productivity.

  2. On the Integration of Digital Design and Analysis Tools

    DEFF Research Database (Denmark)

    Klitgaard, Jens; Kirkegaard, Poul Henning

    2006-01-01

    The aim of this research is to look into integrated digital design and analysis tools in order to find out if it is suited for use by architects and designers or only by specialists and technicians - and if not, then to look at what can be done to make them more available to architects and design...

  3. Assessment of Available Numerical Tools for Dynamic Mooring Analysis

    DEFF Research Database (Denmark)

    Thomsen, Jonas Bjerg; Eskilsson, Claes; Ferri, Francesco

    This report covers a preliminary assessment of available numerical tools to be used in upcoming full dynamic analysis of the mooring systems assessed in the project _Mooring Solutions for Large Wave Energy Converters_. The assessments tends to cover potential candidate software and subsequently c...

  4. Software architecture analysis tool : software architecture metrics collection

    NARCIS (Netherlands)

    Muskens, J.; Chaudron, M.R.V.; Westgeest, R.

    2002-01-01

    The Software Engineering discipline lacks the ability to evaluate software architectures. Here we describe a tool for software architecture analysis that is based on metrics. Metrics can be used to detect possible problems and bottlenecks in software architectures. Even though metrics do not give a

  5. Orienting the Neighborhood: A Subdivision Energy Analysis Tool; Preprint

    Energy Technology Data Exchange (ETDEWEB)

    Christensen, C.; Horowitz, S.

    2008-07-01

    This paper describes a new computerized Subdivision Energy Analysis Tool being developed to allow users to interactively design subdivision street layouts while receiving feedback about energy impacts based on user-specified building design variants and availability of roof surfaces for photovoltaic and solar water heating systems.

  6. An Automated Data Analysis Tool for Livestock Market Data

    Science.gov (United States)

    Williams, Galen S.; Raper, Kellie Curry

    2011-01-01

    This article describes an automated data analysis tool that allows Oklahoma Cooperative Extension Service educators to disseminate results in a timely manner. Primary data collected at Oklahoma Quality Beef Network (OQBN) certified calf auctions across the state results in a large amount of data per sale site. Sale summaries for an individual sale…

  7. Logical Framework Analysis (LFA): An Essential Tool for Designing ...

    African Journals Online (AJOL)

    Evaluation of a project at any stage of its life cycle, especially at its planning stage, is necessary for its successful execution and completion. The Logical Framework Analysis or the Logical Framework Approach (LFA) is an essential tool in designing such evaluation because it is a process that serves as a reference guide in ...

  8. Models as Tools of Analysis of a Network Organisation

    Directory of Open Access Journals (Sweden)

    Wojciech Pająk

    2013-06-01

    Full Text Available The paper presents models which may be applied as tools of analysis of a network organisation. The starting point of the discussion is defining the following terms: supply chain and network organisation. Further parts of the paper present basic assumptions analysis of a network organisation. Then the study characterises the best known models utilised in analysis of a network organisation. The purpose of the article is to define the notion and the essence of network organizations and to present the models used for their analysis.

  9. Adaptive tools in virtual environments: Independent component analysis for multimedia

    DEFF Research Database (Denmark)

    Kolenda, Thomas

    2002-01-01

    The thesis investigates the role of independent component analysis in the setting of virtual environments, with the purpose of finding properties that reflect human context. A general framework for performing unsupervised classification with ICA is presented in extension to the latent semantic in...... were compared to investigate computational differences and separation results. The ICA properties were finally implemented in a chat room analysis tool and briefly investigated for visualization of search engines results....

  10. Thermal Analysis for Condition Monitoring of Machine Tool Spindles

    International Nuclear Information System (INIS)

    Clough, D; Fletcher, S; Longstaff, A P; Willoughby, P

    2012-01-01

    Decreasing tolerances on parts manufactured, or inspected, on machine tools increases the requirement to have a greater understanding of machine tool capabilities, error sources and factors affecting asset availability. Continuous usage of a machine tool during production processes causes heat generation typically at the moving elements, resulting in distortion of the machine structure. These effects, known as thermal errors, can contribute a significant percentage of the total error in a machine tool. There are a number of design solutions available to the machine tool builder to reduce thermal error including, liquid cooling systems, low thermal expansion materials and symmetric machine tool structures. However, these can only reduce the error not eliminate it altogether. It is therefore advisable, particularly in the production of high value parts, for manufacturers to obtain a thermal profile of their machine, to ensure it is capable of producing in tolerance parts. This paper considers factors affecting practical implementation of condition monitoring of the thermal errors. In particular is the requirement to find links between temperature, which is easily measureable during production and the errors which are not. To this end, various methods of testing including the advantages of thermal images are shown. Results are presented from machines in typical manufacturing environments, which also highlight the value of condition monitoring using thermal analysis.

  11. Development of a site analysis tool for distributed wind projects

    Energy Technology Data Exchange (ETDEWEB)

    Shaw, Shawn [The Cadmus Group, Inc., Waltham MA (United States)

    2012-02-28

    The Cadmus Group, Inc., in collaboration with the National Renewable Energy Laboratory (NREL) and Encraft, was awarded a grant from the Department of Energy (DOE) to develop a site analysis tool for distributed wind technologies. As the principal investigator for this project, Mr. Shawn Shaw was responsible for overall project management, direction, and technical approach. The product resulting from this project is the Distributed Wind Site Analysis Tool (DSAT), a software tool for analyzing proposed sites for distributed wind technology (DWT) systems. This user-friendly tool supports the long-term growth and stability of the DWT market by providing reliable, realistic estimates of site and system energy output and feasibility. DSAT-which is accessible online and requires no purchase or download of software-is available in two account types; Standard: This free account allows the user to analyze a limited number of sites and to produce a system performance report for each; and Professional: For a small annual fee users can analyze an unlimited number of sites, produce system performance reports, and generate other customizable reports containing key information such as visual influence and wind resources. The tool’s interactive maps allow users to create site models that incorporate the obstructions and terrain types present. Users can generate site reports immediately after entering the requisite site information. Ideally, this tool also educates users regarding good site selection and effective evaluation practices.

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

    Directory of Open Access Journals (Sweden)

    Tim van Mourik

    2018-05-01

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

  13. Failure Modes and Effects Analysis (FMEA) Assistant Tool Feasibility Study

    Science.gov (United States)

    Flores, Melissa; Malin, Jane T.

    2013-01-01

    An effort to determine the feasibility of a software tool to assist in Failure Modes and Effects Analysis (FMEA) has been completed. This new and unique approach to FMEA uses model based systems engineering concepts to recommend failure modes, causes, and effects to the user after they have made several selections from pick lists about a component s functions and inputs/outputs. Recommendations are made based on a library using common failure modes identified over the course of several major human spaceflight programs. However, the tool could be adapted for use in a wide range of applications from NASA to the energy industry.

  14. Failure Modes and Effects Analysis (FMEA) Assistant Tool Feasibility Study

    Science.gov (United States)

    Flores, Melissa D.; Malin, Jane T.; Fleming, Land D.

    2013-09-01

    An effort to determine the feasibility of a software tool to assist in Failure Modes and Effects Analysis (FMEA) has been completed. This new and unique approach to FMEA uses model based systems engineering concepts to recommend failure modes, causes, and effects to the user after they have made several selections from pick lists about a component's functions and inputs/outputs. Recommendations are made based on a library using common failure modes identified over the course of several major human spaceflight programs. However, the tool could be adapted for use in a wide range of applications from NASA to the energy industry.

  15. Campaign effects and self-analysis Internet tool

    Energy Technology Data Exchange (ETDEWEB)

    Brange, Birgitte [Danish Electricity Saving Trust (Denmark); Fjordbak Larsen, Troels [IT Energy ApS (Denmark); Wilke, Goeran [Danish Electricity Saving Trust (Denmark)

    2007-07-01

    In October 2006, the Danish Electricity Saving Trust launched a large TV campaign targeting domestic electricity consumption. The campaign was based on the central message '1000 kWh/year per person is enough'. The campaign was accompanied by a new internet portal with updated information about numerous household appliances, and by analysis tools for bringing down electricity consumption to 1000 kWh/year per person. The effects of the campaign are monitored through repeated surveys and analysed in relation to usage of internet tools.

  16. A dataflow analysis tool for parallel processing of algorithms

    Science.gov (United States)

    Jones, Robert L., III

    1993-01-01

    A graph-theoretic design process and software tool is presented for selecting a multiprocessing scheduling solution for a class of computational problems. The problems of interest are those that can be described using a dataflow graph and are intended to be executed repetitively on a set of identical parallel processors. Typical applications include signal processing and control law problems. Graph analysis techniques are introduced and shown to effectively determine performance bounds, scheduling constraints, and resource requirements. The software tool is shown to facilitate the application of the design process to a given problem.

  17. Tools and Algorithms for Construction and Analysis of Systems

    DEFF Research Database (Denmark)

    This book constitutes the refereed proceedings of the 6th International Conference on Tools and Algorithms for the Construction and Analysis of Systems, TACAS 2000, held as part of ETAPS 2000 in Berlin, Germany, in March/April 2000. The 33 revised full papers presented together with one invited...... paper and two short tool descriptions were carefully reviewed and selected from a total of 107 submissions. The papers are organized in topical sections on software and formal methods, formal methods, timed and hybrid systems, infinite and parameterized systems, diagnostic and test generation, efficient...

  18. Tool Support for Parametric Analysis of Large Software Simulation Systems

    Science.gov (United States)

    Schumann, Johann; Gundy-Burlet, Karen; Pasareanu, Corina; Menzies, Tim; Barrett, Tony

    2008-01-01

    The analysis of large and complex parameterized software systems, e.g., systems simulation in aerospace, is very complicated and time-consuming due to the large parameter space, and the complex, highly coupled nonlinear nature of the different system components. Thus, such systems are generally validated only in regions local to anticipated operating points rather than through characterization of the entire feasible operational envelope of the system. We have addressed the factors deterring such an analysis with a tool to support envelope assessment: we utilize a combination of advanced Monte Carlo generation with n-factor combinatorial parameter variations to limit the number of cases, but still explore important interactions in the parameter space in a systematic fashion. Additional test-cases, automatically generated from models (e.g., UML, Simulink, Stateflow) improve the coverage. The distributed test runs of the software system produce vast amounts of data, making manual analysis impossible. Our tool automatically analyzes the generated data through a combination of unsupervised Bayesian clustering techniques (AutoBayes) and supervised learning of critical parameter ranges using the treatment learner TAR3. The tool has been developed around the Trick simulation environment, which is widely used within NASA. We will present this tool with a GN&C (Guidance, Navigation and Control) simulation of a small satellite system.

  19. Advanced Vibration Analysis Tool Developed for Robust Engine Rotor Designs

    Science.gov (United States)

    Min, James B.

    2005-01-01

    The primary objective of this research program is to develop vibration analysis tools, design tools, and design strategies to significantly improve the safety and robustness of turbine engine rotors. Bladed disks in turbine engines always feature small, random blade-to-blade differences, or mistuning. Mistuning can lead to a dramatic increase in blade forced-response amplitudes and stresses. Ultimately, this results in high-cycle fatigue, which is a major safety and cost concern. In this research program, the necessary steps will be taken to transform a state-of-the-art vibration analysis tool, the Turbo- Reduce forced-response prediction code, into an effective design tool by enhancing and extending the underlying modeling and analysis methods. Furthermore, novel techniques will be developed to assess the safety of a given design. In particular, a procedure will be established for using natural-frequency curve veerings to identify ranges of operating conditions (rotational speeds and engine orders) in which there is a great risk that the rotor blades will suffer high stresses. This work also will aid statistical studies of the forced response by reducing the necessary number of simulations. Finally, new strategies for improving the design of rotors will be pursued.

  20. Analysis tools for discovering strong parity violation at hadron colliders

    International Nuclear Information System (INIS)

    Backovic, Mihailo; Ralston, John P.

    2011-01-01

    Several arguments suggest parity violation may be observable in high energy strong interactions. We introduce new analysis tools to describe the azimuthal dependence of multiparticle distributions, or 'azimuthal flow'. Analysis uses the representations of the orthogonal group O(2) and dihedral groups D N necessary to define parity completely in two dimensions. Classification finds that collective angles used in event-by-event statistics represent inequivalent tensor observables that cannot generally be represented by a single 'reaction plane'. Many new parity-violating observables exist that have never been measured, while many parity-conserving observables formerly lumped together are now distinguished. We use the concept of 'event-shape sorting' to suggest separating right- and left-handed events, and we discuss the effects of transverse and longitudinal spin. The analysis tools are statistically robust, and can be applied equally to low or high multiplicity events at the Tevatron, RHIC or RHIC Spin, and the LHC.

  1. Anaphe - OO Libraries and Tools for Data Analysis

    CERN Document Server

    Couet, O; Molnar, Z; Moscicki, J T; Pfeiffer, A; Sang, M

    2001-01-01

    The Anaphe project is an ongoing effort to provide an Object Oriented software environment for data analysis in HENP experiments. A range of commercial and public domain libraries is used to cover basic functionalities; on top of these libraries a set of HENP-specific C++ class libraries for histogram management, fitting, plotting and ntuple-like data analysis has been developed. In order to comply with the user requirements for a command-line driven tool, we have chosen to use a scripting language (Python) as the front-end for a data analysis tool. The loose coupling provided by the consequent use of (AIDA compliant) Abstract Interfaces for each component in combination with the use of shared libraries for their implementation provides an easy integration of existing libraries into modern scripting languages thus allowing for rapid application development. This integration is simplified even further using a specialised toolkit (SWIG) to create "shadow classes" for the Python language, which map the definitio...

  2. Development of data analysis tool for combat system integration

    Directory of Open Access Journals (Sweden)

    Seung-Chun Shin

    2013-03-01

    Full Text Available System integration is an important element for the construction of naval combat ships. In particular, because impeccable combat system integration together with the sensors and weapons can ensure the combat capability and survivability of the ship, the integrated performance of the combat system should be verified and validated whether or not it fulfills the requirements of the end user. In order to conduct systematic verification and validation, a data analysis tool is requisite. This paper suggests the Data Extraction, Recording and Analysis Tool (DERAT for the data analysis of the integrated performance of the combat system, including the functional definition, architecture and effectiveness of the DERAT by presenting the test results.

  3. A reliability analysis tool for SpaceWire network

    Science.gov (United States)

    Zhou, Qiang; Zhu, Longjiang; Fei, Haidong; Wang, Xingyou

    2017-04-01

    A SpaceWire is a standard for on-board satellite networks as the basis for future data-handling architectures. It is becoming more and more popular in space applications due to its technical advantages, including reliability, low power and fault protection, etc. High reliability is the vital issue for spacecraft. Therefore, it is very important to analyze and improve the reliability performance of the SpaceWire network. This paper deals with the problem of reliability modeling and analysis with SpaceWire network. According to the function division of distributed network, a reliability analysis method based on a task is proposed, the reliability analysis of every task can lead to the system reliability matrix, the reliability result of the network system can be deduced by integrating these entire reliability indexes in the matrix. With the method, we develop a reliability analysis tool for SpaceWire Network based on VC, where the computation schemes for reliability matrix and the multi-path-task reliability are also implemented. By using this tool, we analyze several cases on typical architectures. And the analytic results indicate that redundancy architecture has better reliability performance than basic one. In practical, the dual redundancy scheme has been adopted for some key unit, to improve the reliability index of the system or task. Finally, this reliability analysis tool will has a directive influence on both task division and topology selection in the phase of SpaceWire network system design.

  4. Status of CONRAD, a nuclear reaction analysis tool

    International Nuclear Information System (INIS)

    Saint Jean, C. de; Habert, B.; Litaize, O.; Noguere, G.; Suteau, C.

    2008-01-01

    The development of a software tool (CONRAD) was initiated at CEA/Cadarache to give answers to various problems arising in the data analysis of nuclear reactions. This tool is then characterized by the handling of uncertainties from experimental values to covariance matrices for multi-group cross sections. An object oriented design was chosen allowing an easy interface with graphical tool for input/output data and being a natural framework for innovative nuclear models (Fission). The major achieved developments are a data model for describing channels, nuclear reactions, nuclear models and processes with interface to classical data formats, theoretical calculations for the resolved resonance range (Reich-Moore) and unresolved resonance range (Hauser-Feshbach, Gilbert-Cameron,...) with nuclear model parameters adjustment on experimental data sets and a Monte Carlo method based on conditional probabilities developed to calculate properly covariance matrices. The on-going developments deal with the experimental data description (covariance matrices) and the graphical user interface. (authors)

  5. Methods and tools for analysis and optimization of power plants

    Energy Technology Data Exchange (ETDEWEB)

    Assadi, Mohsen

    2000-09-01

    The most noticeable advantage of the introduction of the computer-aided tools in the field of power generation, has been the ability to study the plant's performance prior to the construction phase. The results of these studies have made it possible to change and adjust the plant layout to match the pre-defined requirements. Further development of computers in recent years has opened up for implementation of new features in the existing tools and also for the development of new tools for specific applications, like thermodynamic and economic optimization, prediction of the remaining component life time, and fault diagnostics, resulting in improvement of the plant's performance, availability and reliability. The most common tools for pre-design studies are heat and mass balance programs. Further thermodynamic and economic optimization of plant layouts, generated by the heat and mass balance programs, can be accomplished by using pinch programs, exergy analysis and thermoeconomics. Surveillance and fault diagnostics of existing systems can be performed by using tools like condition monitoring systems and artificial neural networks. The increased number of tools and their various construction and application areas make the choice of the most adequate tool for a certain application difficult. In this thesis the development of different categories of tools and techniques, and their application area are reviewed and presented. Case studies on both existing and theoretical power plant layouts have been performed using different commercially available tools to illuminate their advantages and shortcomings. The development of power plant technology and the requirements for new tools and measurement systems have been briefly reviewed. This thesis contains also programming techniques and calculation methods concerning part-load calculations using local linearization, which has been implemented in an inhouse heat and mass balance program developed by the author

  6. Microscopy image segmentation tool: Robust image data analysis

    Energy Technology Data Exchange (ETDEWEB)

    Valmianski, Ilya, E-mail: ivalmian@ucsd.edu; Monton, Carlos; Schuller, Ivan K. [Department of Physics and Center for Advanced Nanoscience, University of California San Diego, 9500 Gilman Drive, La Jolla, California 92093 (United States)

    2014-03-15

    We present a software package called Microscopy Image Segmentation Tool (MIST). MIST is designed for analysis of microscopy images which contain large collections of small regions of interest (ROIs). Originally developed for analysis of porous anodic alumina scanning electron images, MIST capabilities have been expanded to allow use in a large variety of problems including analysis of biological tissue, inorganic and organic film grain structure, as well as nano- and meso-scopic structures. MIST provides a robust segmentation algorithm for the ROIs, includes many useful analysis capabilities, and is highly flexible allowing incorporation of specialized user developed analysis. We describe the unique advantages MIST has over existing analysis software. In addition, we present a number of diverse applications to scanning electron microscopy, atomic force microscopy, magnetic force microscopy, scanning tunneling microscopy, and fluorescent confocal laser scanning microscopy.

  7. Microscopy image segmentation tool: Robust image data analysis

    Science.gov (United States)

    Valmianski, Ilya; Monton, Carlos; Schuller, Ivan K.

    2014-03-01

    We present a software package called Microscopy Image Segmentation Tool (MIST). MIST is designed for analysis of microscopy images which contain large collections of small regions of interest (ROIs). Originally developed for analysis of porous anodic alumina scanning electron images, MIST capabilities have been expanded to allow use in a large variety of problems including analysis of biological tissue, inorganic and organic film grain structure, as well as nano- and meso-scopic structures. MIST provides a robust segmentation algorithm for the ROIs, includes many useful analysis capabilities, and is highly flexible allowing incorporation of specialized user developed analysis. We describe the unique advantages MIST has over existing analysis software. In addition, we present a number of diverse applications to scanning electron microscopy, atomic force microscopy, magnetic force microscopy, scanning tunneling microscopy, and fluorescent confocal laser scanning microscopy.

  8. Microscopy image segmentation tool: Robust image data analysis

    International Nuclear Information System (INIS)

    Valmianski, Ilya; Monton, Carlos; Schuller, Ivan K.

    2014-01-01

    We present a software package called Microscopy Image Segmentation Tool (MIST). MIST is designed for analysis of microscopy images which contain large collections of small regions of interest (ROIs). Originally developed for analysis of porous anodic alumina scanning electron images, MIST capabilities have been expanded to allow use in a large variety of problems including analysis of biological tissue, inorganic and organic film grain structure, as well as nano- and meso-scopic structures. MIST provides a robust segmentation algorithm for the ROIs, includes many useful analysis capabilities, and is highly flexible allowing incorporation of specialized user developed analysis. We describe the unique advantages MIST has over existing analysis software. In addition, we present a number of diverse applications to scanning electron microscopy, atomic force microscopy, magnetic force microscopy, scanning tunneling microscopy, and fluorescent confocal laser scanning microscopy

  9. Aeroelastic Ground Wind Loads Analysis Tool for Launch Vehicles

    Science.gov (United States)

    Ivanco, Thomas G.

    2016-01-01

    Launch vehicles are exposed to ground winds during rollout and on the launch pad that can induce static and dynamic loads. Of particular concern are the dynamic loads caused by vortex shedding from nearly-cylindrical structures. When the frequency of vortex shedding nears that of a lowly-damped structural mode, the dynamic loads can be more than an order of magnitude greater than mean drag loads. Accurately predicting vehicle response to vortex shedding during the design and analysis cycles is difficult and typically exceeds the practical capabilities of modern computational fluid dynamics codes. Therefore, mitigating the ground wind loads risk typically requires wind-tunnel tests of dynamically-scaled models that are time consuming and expensive to conduct. In recent years, NASA has developed a ground wind loads analysis tool for launch vehicles to fill this analytical capability gap in order to provide predictions for prelaunch static and dynamic loads. This paper includes a background of the ground wind loads problem and the current state-of-the-art. It then discusses the history and significance of the analysis tool and the methodology used to develop it. Finally, results of the analysis tool are compared to wind-tunnel and full-scale data of various geometries and Reynolds numbers.

  10. Spaceborne Differential SAR Interferometry: Data Analysis Tools for Deformation Measurement

    Directory of Open Access Journals (Sweden)

    Michele Crosetto

    2011-02-01

    Full Text Available This paper is focused on spaceborne Differential Interferometric SAR (DInSAR for land deformation measurement and monitoring. In the last two decades several DInSAR data analysis procedures have been proposed. The objective of this paper is to describe the DInSAR data processing and analysis tools developed at the Institute of Geomatics in almost ten years of research activities. Four main DInSAR analysis procedures are described, which range from the standard DInSAR analysis based on a single interferogram to more advanced Persistent Scatterer Interferometry (PSI approaches. These different procedures guarantee a sufficient flexibility in DInSAR data processing. In order to provide a technical insight into these analysis procedures, a whole section discusses their main data processing and analysis steps, especially those needed in PSI analyses. A specific section is devoted to the core of our PSI analysis tools: the so-called 2+1D phase unwrapping procedure, which couples a 2D phase unwrapping, performed interferogram-wise, with a kind of 1D phase unwrapping along time, performed pixel-wise. In the last part of the paper, some examples of DInSAR results are discussed, which were derived by standard DInSAR or PSI analyses. Most of these results were derived from X-band SAR data coming from the TerraSAR-X and CosmoSkyMed sensors.

  11. Knickpoint finder: A software tool that improves neotectonic analysis

    Science.gov (United States)

    Queiroz, G. L.; Salamuni, E.; Nascimento, E. R.

    2015-03-01

    This work presents a new software tool for morphometric analysis of drainage networks based on the methods of Hack (1973) and Etchebehere et al. (2004). This tool is applicable to studies of morphotectonics and neotectonics. The software used a digital elevation model (DEM) to identify the relief breakpoints along drainage profiles (knickpoints). The program was coded in Python for use on the ArcGIS platform and is called Knickpoint Finder. A study area was selected to test and evaluate the software's ability to analyze and identify neotectonic morphostructures based on the morphology of the terrain. For an assessment of its validity, we chose an area of the James River basin, which covers most of the Piedmont area of Virginia (USA), which is an area of constant intraplate seismicity and non-orogenic active tectonics and exhibits a relatively homogeneous geodesic surface currently being altered by the seismogenic features of the region. After using the tool in the chosen area, we found that the knickpoint locations are associated with the geologic structures, epicenters of recent earthquakes, and drainages with rectilinear anomalies. The regional analysis demanded the use of a spatial representation of the data after processing using Knickpoint Finder. The results were satisfactory in terms of the correlation of dense areas of knickpoints with active lineaments and the rapidity of the identification of deformed areas. Therefore, this software tool may be considered useful in neotectonic analyses of large areas and may be applied to any area where there is DEM coverage.

  12. Conditional Probability Analysis: A Statistical Tool for Environmental Analysis.

    Science.gov (United States)

    The use and application of environmental conditional probability analysis (CPA) is relatively recent. The first presentation using CPA was made in 2002 at the New England Association of Environmental Biologists Annual Meeting in Newport. Rhode Island. CPA has been used since the...

  13. Applying AI tools to operational space environmental analysis

    Science.gov (United States)

    Krajnak, Mike; Jesse, Lisa; Mucks, John

    1995-01-01

    The U.S. Air Force and National Oceanic Atmospheric Agency (NOAA) space environmental operations centers are facing increasingly complex challenges meeting the needs of their growing user community. These centers provide current space environmental information and short term forecasts of geomagnetic activity. Recent advances in modeling and data access have provided sophisticated tools for making accurate and timely forecasts, but have introduced new problems associated with handling and analyzing large quantities of complex data. AI (Artificial Intelligence) techniques have been considered as potential solutions to some of these problems. Fielding AI systems has proven more difficult than expected, in part because of operational constraints. Using systems which have been demonstrated successfully in the operational environment will provide a basis for a useful data fusion and analysis capability. Our approach uses a general purpose AI system already in operational use within the military intelligence community, called the Temporal Analysis System (TAS). TAS is an operational suite of tools supporting data processing, data visualization, historical analysis, situation assessment and predictive analysis. TAS includes expert system tools to analyze incoming events for indications of particular situations and predicts future activity. The expert system operates on a knowledge base of temporal patterns encoded using a knowledge representation called Temporal Transition Models (TTM's) and an event database maintained by the other TAS tools. The system also includes a robust knowledge acquisition and maintenance tool for creating TTM's using a graphical specification language. The ability to manipulate TTM's in a graphical format gives non-computer specialists an intuitive way of accessing and editing the knowledge base. To support space environmental analyses, we used TAS's ability to define domain specific event analysis abstractions. The prototype system defines

  14. Analysis Tools for Next-Generation Hadron Spectroscopy Experiments

    Science.gov (United States)

    Battaglieri, M.; Briscoe, B. J.; Celentano, A.; Chung, S.-U.; D'Angelo, A.; De Vita, R.; Döring, M.; Dudek, J.; Eidelman, S.; Fegan, S.; Ferretti, J.; Filippi, A.; Fox, G.; Galata, G.; García-Tecocoatzi, H.; Glazier, D. I.; Grube, B.; Hanhart, C.; Hoferichter, M.; Hughes, S. M.; Ireland, D. G.; Ketzer, B.; Klein, F. J.; Kubis, B.; Liu, B.; Masjuan, P.; Mathieu, V.; McKinnon, B.; Mitchel, R.; Nerling, F.; Paul, S.; Peláez, J. R.; Rademacker, J.; Rizzo, A.; Salgado, C.; Santopinto, E.; Sarantsev, A. V.; Sato, T.; Schlüter, T.; [Silva]da Silva, M. L. L.; Stankovic, I.; Strakovsky, I.; Szczepaniak, A.; Vassallo, A.; Walford, N. K.; Watts, D. P.; Zana, L.

    The series of workshops on New Partial-Wave Analysis Tools for Next-Generation Hadron Spectroscopy Experiments was initiated with the ATHOS 2012 meeting, which took place in Camogli, Italy, June 20-22, 2012. It was followed by ATHOS 2013 in Kloster Seeon near Munich, Germany, May 21-24, 2013. The third, ATHOS3, meeting is planned for April 13-17, 2015 at The George Washington University Virginia Science and Technology Campus, USA. The workshops focus on the development of amplitude analysis tools for meson and baryon spectroscopy, and complement other programs in hadron spectroscopy organized in the recent past including the INT-JLab Workshop on Hadron Spectroscopy in Seattle in 2009, the International Workshop on Amplitude Analysis in Hadron Spectroscopy at the ECT*-Trento in 2011, the School on Amplitude Analysis in Modern Physics in Bad Honnef in 2011, the Jefferson Lab Advanced Study Institute Summer School in 2012, and the School on Concepts of Modern Amplitude Analysis Techniques in Flecken-Zechlin near Berlin in September 2013. The aim of this document is to summarize the discussions that took place at the ATHOS 2012 and ATHOS 2013 meetings. We do not attempt a comprehensive review of the field of amplitude analysis, but offer a collection of thoughts that we hope may lay the ground for such a document.

  15. Analysis Tools for Next-Generation Hadron Spectroscopy Experiments

    International Nuclear Information System (INIS)

    Battaglieri, Marco; Briscoe, William; Celentano, Andrea; Chung, Suh-Urk; D'Angelo, Annalisa; De Vita, Rafaella; Döring, Michael; Dudek, Jozef; Eidelman, S.; Fegan, Stuart; Ferretti, J.; Filippi, A.; Fox, G.; Galata, G.; Garcia-Tecocoatzi, H.; Glazier, Derek; Grube, B.; Hanhart, C.; Hoferichter, M.; Hughes, S. M.; Ireland, David G.; Ketzer, B.; Klein, Franz J.; Kubis, B.; Liu, B.; Masjuan, P.; Mathieu, Vincent; McKinnon, Brian; Mitchel, R.; Nerling, F.; Paul, S.; Peláez, J. R.; Rademacker, J.; Rizzo, Alessandro; Salgado, Carlos; Santopinto, E.; Sarantsev, Andrey V.; Sato, Toru; Schlüter, T.; Da Silva, M. L.L.; Stankovic, I.; Strakovsky, Igor; Szczepaniak, Adam; Vassallo, A.; Walford, Natalie K.; Watts, Daniel P.

    2015-01-01

    The series of workshops on New Partial-Wave Analysis Tools for Next-Generation Hadron Spectroscopy Experiments was initiated with the ATHOS 2012 meeting, which took place in Camogli, Italy, June 20-22, 2012. It was followed by ATHOS 2013 in Kloster Seeon near Munich, Germany, May 21-24, 2013. The third, ATHOS3, meeting is planned for April 13-17, 2015 at The George Washington University Virginia Science and Technology Campus, USA. The workshops focus on the development of amplitude analysis tools for meson and baryon spectroscopy, and complement other programs in hadron spectroscopy organized in the recent past including the INT-JLab Workshop on Hadron Spectroscopy in Seattle in 2009, the International Workshop on Amplitude Analysis in Hadron Spectroscopy at the ECT*-Trento in 2011, the School on Amplitude Analysis in Modern Physics in Bad Honnef in 2011, the Jefferson Lab Advanced Study Institute Summer School in 2012, and the School on Concepts of Modern Amplitude Analysis Techniques in Flecken-Zechlin near Berlin in September 2013. The aim of this document is to summarize the discussions that took place at the ATHOS 2012 and ATHOS 2013 meetings. We do not attempt a comprehensive review of the field of amplitude analysis, but offer a collection of thoughts that we hope may lay the ground for such a document

  16. Nucleonica. Web-based software tools for simulation and analysis

    International Nuclear Information System (INIS)

    Magill, J.; Dreher, R.; Soti, Z.

    2014-01-01

    The authors present a description of the Nucleonica web-based portal for simulation and analysis for a wide range of commonly encountered nuclear science applications. Advantages of a web-based approach include availability wherever there is internet access, intuitive user-friendly interface, remote access to high-power computing resources, and continual maintenance, improvement, and addition of tools and techniques common to the nuclear science industry. A description of the nuclear data resources, and some applications is given.

  17. Analysis of functionality free CASE-tools databases design

    Directory of Open Access Journals (Sweden)

    A. V. Gavrilov

    2016-01-01

    Full Text Available The introduction in the educational process of database design CASEtechnologies requires the institution of significant costs for the purchase of software. A possible solution could be the use of free software peers. At the same time this kind of substitution should be based on even-com representation of the functional characteristics and features of operation of these programs. The purpose of the article – a review of the free and non-profi t CASE-tools database design, as well as their classifi cation on the basis of the analysis functionality. When writing this article were used materials from the offi cial websites of the tool developers. Evaluation of the functional characteristics of CASEtools for database design made exclusively empirically with the direct work with software products. Analysis functionality of tools allow you to distinguish the two categories CASE-tools database design. The first category includes systems with a basic set of features and tools. The most important basic functions of these systems are: management connections to database servers, visual tools to create and modify database objects (tables, views, triggers, procedures, the ability to enter and edit data in table mode, user and privilege management tools, editor SQL-code, means export/import data. CASE-system related to the first category can be used to design and develop simple databases, data management, as well as a means of administration server database. A distinctive feature of the second category of CASE-tools for database design (full-featured systems is the presence of visual designer, allowing to carry out the construction of the database model and automatic creation of the database on the server based on this model. CASE-system related to this categories can be used for the design and development of databases of any structural complexity, as well as a database server administration tool. The article concluded that the

  18. Analysis and Prediction of Micromilling Stability with Variable Tool Geometry

    Directory of Open Access Journals (Sweden)

    Ziyang Cao

    2014-11-01

    Full Text Available Micromilling can fabricate miniaturized components using micro-end mill at high rotational speeds. The analysis of machining stability in micromilling plays an important role in characterizing the cutting process, estimating the tool life, and optimizing the process. A numerical analysis and experimental method are presented to investigate the chatter stability in micro-end milling process with variable milling tool geometry. The schematic model of micromilling process is constructed and the calculation formula to predict cutting force and displacements is derived. This is followed by a detailed numerical analysis on micromilling forces between helical ball and square end mills through time domain and frequency domain method and the results are compared. Furthermore, a detailed time domain simulation for micro end milling with straight teeth and helical teeth end mill is conducted based on the machine-tool system frequency response function obtained through modal experiment. The forces and displacements are predicted and the simulation result between variable cutter geometry is deeply compared. The simulation results have important significance for the actual milling process.

  19. Economic Consequence Analysis of Disasters: The ECAT Software Tool

    Energy Technology Data Exchange (ETDEWEB)

    Rose, Adam; Prager, Fynn; Chen, Zhenhua; Chatterjee, Samrat; Wei, Dan; Heatwole, Nathaniel; Warren, Eric

    2017-04-15

    This study develops a methodology for rapidly obtaining approximate estimates of the economic consequences from numerous natural, man-made and technological threats. This software tool is intended for use by various decision makers and analysts to obtain estimates rapidly. It is programmed in Excel and Visual Basic for Applications (VBA) to facilitate its use. This tool is called E-CAT (Economic Consequence Analysis Tool) and accounts for the cumulative direct and indirect impacts (including resilience and behavioral factors that significantly affect base estimates) on the U.S. economy. E-CAT is intended to be a major step toward advancing the current state of economic consequence analysis (ECA) and also contributing to and developing interest in further research into complex but rapid turnaround approaches. The essence of the methodology involves running numerous simulations in a computable general equilibrium (CGE) model for each threat, yielding synthetic data for the estimation of a single regression equation based on the identification of key explanatory variables (threat characteristics and background conditions). This transforms the results of a complex model, which is beyond the reach of most users, into a "reduced form" model that is readily comprehensible. Functionality has been built into E-CAT so that its users can switch various consequence categories on and off in order to create customized profiles of economic consequences of numerous risk events. E-CAT incorporates uncertainty on both the input and output side in the course of the analysis.

  20. Remote-Sensing Time Series Analysis, a Vegetation Monitoring Tool

    Science.gov (United States)

    McKellip, Rodney; Prados, Donald; Ryan, Robert; Ross, Kenton; Spruce, Joseph; Gasser, Gerald; Greer, Randall

    2008-01-01

    The Time Series Product Tool (TSPT) is software, developed in MATLAB , which creates and displays high signal-to- noise Vegetation Indices imagery and other higher-level products derived from remotely sensed data. This tool enables automated, rapid, large-scale regional surveillance of crops, forests, and other vegetation. TSPT temporally processes high-revisit-rate satellite imagery produced by the Moderate Resolution Imaging Spectroradiometer (MODIS) and by other remote-sensing systems. Although MODIS imagery is acquired daily, cloudiness and other sources of noise can greatly reduce the effective temporal resolution. To improve cloud statistics, the TSPT combines MODIS data from multiple satellites (Aqua and Terra). The TSPT produces MODIS products as single time-frame and multitemporal change images, as time-series plots at a selected location, or as temporally processed image videos. Using the TSPT program, MODIS metadata is used to remove and/or correct bad and suspect data. Bad pixel removal, multiple satellite data fusion, and temporal processing techniques create high-quality plots and animated image video sequences that depict changes in vegetation greenness. This tool provides several temporal processing options not found in other comparable imaging software tools. Because the framework to generate and use other algorithms is established, small modifications to this tool will enable the use of a large range of remotely sensed data types. An effective remote-sensing crop monitoring system must be able to detect subtle changes in plant health in the earliest stages, before the effects of a disease outbreak or other adverse environmental conditions can become widespread and devastating. The integration of the time series analysis tool with ground-based information, soil types, crop types, meteorological data, and crop growth models in a Geographic Information System, could provide the foundation for a large-area crop-surveillance system that could identify

  1. ISAC: A tool for aeroservoelastic modeling and analysis

    Science.gov (United States)

    Adams, William M., Jr.; Hoadley, Sherwood Tiffany

    1993-01-01

    The capabilities of the Interaction of Structures, Aerodynamics, and Controls (ISAC) system of program modules is discussed. The major modeling, analysis, and data management components of ISAC are identified. Equations of motion are displayed for a Laplace-domain representation of the unsteady aerodynamic forces. Options for approximating a frequency-domain representation of unsteady aerodynamic forces with rational functions of the Laplace variable are shown. Linear time invariant state-space equations of motion that result are discussed. Model generation and analyses of stability and dynamic response characteristics are shown for an aeroelastic vehicle which illustrates some of the capabilities of ISAC as a modeling and analysis tool for aeroelastic applications.

  2. Federal metering data analysis needs and existing tools

    Energy Technology Data Exchange (ETDEWEB)

    Henderson, Jordan W. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Fowler, Kimberly M. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2015-07-01

    Agencies have been working to improve their metering data collection, management, and analysis efforts over the last decade (since EPAct 2005) and will continue to address these challenges as new requirements and data needs come into place. Unfortunately there is no “one-size-fits-all” solution. As agencies continue to expand their capabilities to use metered consumption data to reducing resource use and improve operations, the hope is that shared knowledge will empower others to follow suit. This paper discusses the Federal metering data analysis needs and some existing tools.

  3. Mutation analysis of SLC26A4 for Pendred syndrome and nonsyndromic hearing loss by high-resolution melting

    DEFF Research Database (Denmark)

    Chen, Neng; Tranebjærg, Lisbeth; Rendtorff, Nanna Dahl

    2011-01-01

    Pendred syndrome and DFNB4 (autosomal recessive nonsyndromic congenital deafness, locus 4) are associated with autosomal recessive congenital sensorineural hearing loss and mutations in the SLC26A4 gene. Extensive allelic heterogeneity, however, necessitates analysis of all exons and splice sites...

  4. ADVANCED AND RAPID DEVELOPMENT OF DYNAMIC ANALYSIS TOOLS FOR JAVA

    Directory of Open Access Journals (Sweden)

    Alex Villazón

    2012-01-01

    Full Text Available Low-level bytecode instrumentation techniques are widely used in many software-engineering tools for the Java Virtual Machine (JVM, that perform some form of dynamic program analysis, such as profilers or debuggers. While program manipulation at the bytecode level is very flexible, because the possible bytecode transformations are not restricted, tool development based on this technique is tedious and error-prone. As a promising alternative, the specification of bytecode instrumentation at a higher level using aspect-oriented programming (AOP can reduce tool development time and cost. Unfortunately, prevailing AOP frameworks lack some features that are essential for certain dynamic analyses. In this article, we focus on three common shortcomings in AOP frameworks with respect to the development of aspect-based tools - (1 the lack of mechanisms for passing data between woven advices in local variables, (2 the support for user-defined static analyses at weaving time, and (3 the absence of pointcuts at the level of individual basic blocks of code. We propose @J, an annotation-based AOP language and weaver that integrates support for these three features. The benefits of the proposed features are illustrated with concrete examples.

  5. Evaluating control displays with the Engineering Control Analysis Tool (ECAT)

    International Nuclear Information System (INIS)

    Plott, B.

    2006-01-01

    In the Nuclear Power Industry increased use of automated sensors and advanced control systems is expected to reduce and/or change manning requirements. However, critical questions remain regarding the extent to which safety will be compromised if the cognitive workload associated with monitoring multiple automated systems is increased. Can operators/engineers maintain an acceptable level of performance if they are required to supervise multiple automated systems and respond appropriately to off-normal conditions? The interface to/from the automated systems must provide the information necessary for making appropriate decisions regarding intervention in the automated process, but be designed so that the cognitive load is neither too high nor too low for the operator who is responsible for the monitoring and decision making. This paper will describe a new tool that was developed to enhance the ability of human systems integration (HSI) professionals and systems engineers to identify operational tasks in which a high potential for human overload and error can be expected. The tool is entitled the Engineering Control Analysis Tool (ECAT). ECAT was designed and developed to assist in the analysis of: Reliability Centered Maintenance (RCM), operator task requirements, human error probabilities, workload prediction, potential control and display problems, and potential panel layout problems. (authors)

  6. Evaluating control displays with the Engineering Control Analysis Tool (ECAT)

    Energy Technology Data Exchange (ETDEWEB)

    Plott, B. [Alion Science and Technology, MA and D Operation, 4949 Pearl E. Circle, 300, Boulder, CO 80301 (United States)

    2006-07-01

    In the Nuclear Power Industry increased use of automated sensors and advanced control systems is expected to reduce and/or change manning requirements. However, critical questions remain regarding the extent to which safety will be compromised if the cognitive workload associated with monitoring multiple automated systems is increased. Can operators/engineers maintain an acceptable level of performance if they are required to supervise multiple automated systems and respond appropriately to off-normal conditions? The interface to/from the automated systems must provide the information necessary for making appropriate decisions regarding intervention in the automated process, but be designed so that the cognitive load is neither too high nor too low for the operator who is responsible for the monitoring and decision making. This paper will describe a new tool that was developed to enhance the ability of human systems integration (HSI) professionals and systems engineers to identify operational tasks in which a high potential for human overload and error can be expected. The tool is entitled the Engineering Control Analysis Tool (ECAT). ECAT was designed and developed to assist in the analysis of: Reliability Centered Maintenance (RCM), operator task requirements, human error probabilities, workload prediction, potential control and display problems, and potential panel layout problems. (authors)

  7. A tool model for predicting atmospheric kinetics with sensitivity analysis

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    A package( a tool model) for program of predicting atmospheric chemical kinetics with sensitivity analysis is presented. The new direct method of calculating the first order sensitivity coefficients using sparse matrix technology to chemical kinetics is included in the tool model, it is only necessary to triangularize the matrix related to the Jacobian matrix of the model equation. The Gear type procedure is used to integrate amodel equation and its coupled auxiliary sensitivity coefficient equations. The FORTRAN subroutines of the model equation, the sensitivity coefficient equations, and their Jacobian analytical expressions are generated automatically from a chemical mechanism. The kinetic representation for the model equation and its sensitivity coefficient equations, and their Jacobian matrix is presented. Various FORTRAN subroutines in packages, such as SLODE, modified MA28, Gear package, with which the program runs in conjunction are recommended.The photo-oxidation of dimethyl disulfide is used for illustration.

  8. Colossal Tooling Design: 3D Simulation for Ergonomic Analysis

    Science.gov (United States)

    Hunter, Steve L.; Dischinger, Charles; Thomas, Robert E.; Babai, Majid

    2003-01-01

    The application of high-level 3D simulation software to the design phase of colossal mandrel tooling for composite aerospace fuel tanks was accomplished to discover and resolve safety and human engineering problems. The analyses were conducted to determine safety, ergonomic and human engineering aspects of the disassembly process of the fuel tank composite shell mandrel. Three-dimensional graphics high-level software, incorporating various ergonomic analysis algorithms, was utilized to determine if the process was within safety and health boundaries for the workers carrying out these tasks. In addition, the graphical software was extremely helpful in the identification of material handling equipment and devices for the mandrel tooling assembly/disassembly process.

  9. The reliability analysis of cutting tools in the HSM processes

    OpenAIRE

    W.S. Lin

    2008-01-01

    Purpose: This article mainly describe the reliability of the cutting tools in the high speed turning by normaldistribution model.Design/methodology/approach: A series of experimental tests have been done to evaluate the reliabilityvariation of the cutting tools. From experimental results, the tool wear distribution and the tool life are determined,and the tool life distribution and the reliability function of cutting tools are derived. Further, the reliability ofcutting tools at anytime for h...

  10. Basic statistical tools in research and data analysis

    Directory of Open Access Journals (Sweden)

    Zulfiqar Ali

    2016-01-01

    Full Text Available Statistical methods involved in carrying out a study include planning, designing, collecting data, analysing, drawing meaningful interpretation and reporting of the research findings. The statistical analysis gives meaning to the meaningless numbers, thereby breathing life into a lifeless data. The results and inferences are precise only if proper statistical tests are used. This article will try to acquaint the reader with the basic research tools that are utilised while conducting various studies. The article covers a brief outline of the variables, an understanding of quantitative and qualitative variables and the measures of central tendency. An idea of the sample size estimation, power analysis and the statistical errors is given. Finally, there is a summary of parametric and non-parametric tests used for data analysis.

  11. GOMA: functional enrichment analysis tool based on GO modules

    Institute of Scientific and Technical Information of China (English)

    Qiang Huang; Ling-Yun Wu; Yong Wang; Xiang-Sun Zhang

    2013-01-01

    Analyzing the function of gene sets is a critical step in interpreting the results of high-throughput experiments in systems biology.A variety of enrichment analysis tools have been developed in recent years,but most output a long list of significantly enriched terms that are often redundant,making it difficult to extract the most meaningful functions.In this paper,we present GOMA,a novel enrichment analysis method based on the new concept of enriched functional Gene Ontology (GO) modules.With this method,we systematically revealed functional GO modules,i.e.,groups of functionally similar GO terms,via an optimization model and then ranked them by enrichment scores.Our new method simplifies enrichment analysis results by reducing redundancy,thereby preventing inconsistent enrichment results among functionally similar terms and providing more biologically meaningful results.

  12. Accounting and Financial Data Analysis Data Mining Tools

    Directory of Open Access Journals (Sweden)

    Diana Elena Codreanu

    2011-05-01

    Full Text Available Computerized accounting systems in recent years have seen an increase in complexity due to thecompetitive economic environment but with the help of data analysis solutions such as OLAP and DataMining can be a multidimensional data analysis, can detect the fraud and can discover knowledge hidden indata, ensuring such information is useful for decision making within the organization. In the literature thereare many definitions for data mining but all boils down to same idea: the process takes place to extract newinformation from large data collections, information without the aid of data mining tools would be verydifficult to obtain. Information obtained by data mining process has the advantage that only respond to thequestion of what happens but at the same time argue and show why certain things are happening. In this paperwe wish to present advanced techniques for analysis and exploitation of data stored in a multidimensionaldatabase.

  13. Analysis tools for discovering strong parity violation at hadron colliders

    Science.gov (United States)

    Backović, Mihailo; Ralston, John P.

    2011-07-01

    Several arguments suggest parity violation may be observable in high energy strong interactions. We introduce new analysis tools to describe the azimuthal dependence of multiparticle distributions, or “azimuthal flow.” Analysis uses the representations of the orthogonal group O(2) and dihedral groups DN necessary to define parity completely in two dimensions. Classification finds that collective angles used in event-by-event statistics represent inequivalent tensor observables that cannot generally be represented by a single “reaction plane.” Many new parity-violating observables exist that have never been measured, while many parity-conserving observables formerly lumped together are now distinguished. We use the concept of “event-shape sorting” to suggest separating right- and left-handed events, and we discuss the effects of transverse and longitudinal spin. The analysis tools are statistically robust, and can be applied equally to low or high multiplicity events at the Tevatron, RHIC or RHIC Spin, and the LHC.

  14. Analysis of Cryogenic Cycle with Process Modeling Tool: Aspen HYSYS

    Science.gov (United States)

    Joshi, D. M.; Patel, H. K.

    2015-10-01

    Cryogenic engineering deals with the development and improvement of low temperature techniques, processes and equipment. A process simulator such as Aspen HYSYS, for the design, analysis, and optimization of process plants, has features that accommodate the special requirements and therefore can be used to simulate most cryogenic liquefaction and refrigeration processes. Liquefaction is the process of cooling or refrigerating a gas to a temperature below its critical temperature so that liquid can be formed at some suitable pressure which is below the critical pressure. Cryogenic processes require special attention in terms of the integration of various components like heat exchangers, Joule-Thompson Valve, Turbo expander and Compressor. Here, Aspen HYSYS, a process modeling tool, is used to understand the behavior of the complete plant. This paper presents the analysis of an air liquefaction plant based on the Linde cryogenic cycle, performed using the Aspen HYSYS process modeling tool. It covers the technique used to find the optimum values for getting the maximum liquefaction of the plant considering different constraints of other parameters. The analysis result so obtained gives clear idea in deciding various parameter values before implementation of the actual plant in the field. It also gives an idea about the productivity and profitability of the given configuration plant which leads to the design of an efficient productive plant.

  15. Analysis of Cryogenic Cycle with Process Modeling Tool: Aspen HYSYS

    International Nuclear Information System (INIS)

    Joshi, D.M.; Patel, H.K.

    2015-01-01

    Cryogenic engineering deals with the development and improvement of low temperature techniques, processes and equipment. A process simulator such as Aspen HYSYS, for the design, analysis, and optimization of process plants, has features that accommodate the special requirements and therefore can be used to simulate most cryogenic liquefaction and refrigeration processes. Liquefaction is the process of cooling or refrigerating a gas to a temperature below its critical temperature so that liquid can be formed at some suitable pressure which is below the critical pressure. Cryogenic processes require special attention in terms of the integration of various components like heat exchangers, Joule-Thompson Valve, Turbo expander and Compressor. Here, Aspen HYSYS, a process modeling tool, is used to understand the behavior of the complete plant. This paper presents the analysis of an air liquefaction plant based on the Linde cryogenic cycle, performed using the Aspen HYSYS process modeling tool. It covers the technique used to find the optimum values for getting the maximum liquefaction of the plant considering different constraints of other parameters. The analysis result so obtained gives clear idea in deciding various parameter values before implementation of the actual plant in the field. It also gives an idea about the productivity and profitability of the given configuration plant which leads to the design of an efficient productive plant

  16. Anaphe - OO libraries and tools for data analysis

    International Nuclear Information System (INIS)

    Couet, O.; Ferrero-Merlino, B.; Molnar, Z.; Moscicki, J.T.; Pfeiffer, A.; Sang, M.

    2001-01-01

    The Anaphe project is an ongoing effort to provide an Object Oriented software environment for data analysis in HENP experiments. A range of commercial and public domain libraries is used to cover basic functionalities; on top of these libraries a set of HENP-specific C++ class libraries for histogram management, fitting, plotting and ntuple-like data analysis has been developed. In order to comply with the user requirements for a command-line driven tool, the authors have chosen to use a scripting language (Python) as the front-end for a data analysis tool. The loose coupling provided by the consequent use of (AIDA compliant) Abstract Interfaces for each component in combination with the use of shared libraries for their implementation provides an easy integration of existing libraries into modern scripting languages thus allowing for rapid application development. This integration is simplified even further using a specialised toolkit (SWIG) to create 'shadow classes' for the Python language, which map the definitions of the Abstract Interfaces almost at a one-to-one level. The authors will give an overview of the architecture and design choices and will present the current status and future developments of the project

  17. Operations other than war: Requirements for analysis tools research report

    Energy Technology Data Exchange (ETDEWEB)

    Hartley, D.S. III

    1996-12-01

    This report documents the research effort to determine the requirements for new or improved analysis tools to support decisions at the strategic and operational levels for military Operations Other than War (OOTW). The work was performed for the Commander in Chief, U.S. Pacific Command (USCINCPAC). The data collection was based on workshops attended by experts in OOTWs: analysis personnel from each of the Combatant Commands, the Services, the Office of the Secretary of Defense (OSD), the Joint Staff, and other knowledgeable personnel. Further data were gathered from other workshops and conferences and from the literature. The results of this research begin with the creation of a taxonomy of OOTWs: categories of operations, attributes of operations, and tasks requiring analytical support. The tasks are connected to the Joint Staff`s Universal Joint Task List (UJTL). Historical OOTWs are analyzed to produce frequency distributions by category and responsible CINC. The analysis products are synthesized into a list of requirements for analytical tools and definitions of the requirements. The report concludes with a timeline or roadmap for satisfying the requirements.

  18. Principles and tools for collaborative entity-based intelligence analysis.

    Science.gov (United States)

    Bier, Eric A; Card, Stuart K; Bodnar, John W

    2010-01-01

    Software tools that make it easier for analysts to collaborate as a natural part of their work will lead to better analysis that is informed by more perspectives. We are interested to know if software tools can be designed that support collaboration even as they allow analysts to find documents and organize information (including evidence, schemas, and hypotheses). We have modified the Entity Workspace system, described previously, to test such designs. We have evaluated the resulting design in both a laboratory study and a study where it is situated with an analysis team. In both cases, effects on collaboration appear to be positive. Key aspects of the design include an evidence notebook optimized for organizing entities (rather than text characters), information structures that can be collapsed and expanded, visualization of evidence that emphasizes events and documents (rather than emphasizing the entity graph), and a notification system that finds entities of mutual interest to multiple analysts. Long-term tests suggest that this approach can support both top-down and bottom-up styles of analysis.

  19. Integrated Network Analysis and Effective Tools in Plant Systems Biology

    Directory of Open Access Journals (Sweden)

    Atsushi eFukushima

    2014-11-01

    Full Text Available One of the ultimate goals in plant systems biology is to elucidate the genotype-phenotype relationship in plant cellular systems. Integrated network analysis that combines omics data with mathematical models has received particular attention. Here we focus on the latest cutting-edge computational advances that facilitate their combination. We highlight (1 network visualization tools, (2 pathway analyses, (3 genome-scale metabolic reconstruction, and (4 the integration of high-throughput experimental data and mathematical models. Multi-omics data that contain the genome, transcriptome, proteome, and metabolome and mathematical models are expected to integrate and expand our knowledge of complex plant metabolisms.

  20. Modeling energy technology choices. Which investment analysis tools are appropriate?

    International Nuclear Information System (INIS)

    Johnson, B.E.

    1994-01-01

    A variety of tools from modern investment theory appear to hold promise for unraveling observed energy technology investment behavior that often appears anomalous when analyzed using traditional investment analysis methods. This paper reviews the assumptions and important insights of the investment theories most commonly suggested as candidates for explaining the apparent ''energy technology investment paradox''. The applicability of each theory is considered in the light of important aspects of energy technology investment problems, such as sunk costs, uncertainty and imperfect information. The theories addressed include the capital asset pricing model, the arbitrage pricing theory, and the theory of irreversible investment. Enhanced net present value methods are also considered. (author)

  1. Schema for the LANL infrasound analysis tool, infrapy

    Energy Technology Data Exchange (ETDEWEB)

    Dannemann, Fransiska Kate [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Marcillo, Omar Eduardo [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)

    2017-04-14

    The purpose of this document is to define the schema used for the operation of the infrasound analysis tool, infrapy. The tables described by this document extend the CSS3.0 or KB core schema to include information required for the operation of infrapy. This document is divided into three sections, the first being this introduction. Section two defines eight new, infrasonic data processing-specific database tables. Both internal (ORACLE) and external formats for the attributes are defined, along with a short description of each attribute. Section three of the document shows the relationships between the different tables by using entity-relationship diagrams.

  2. Predicting SPE Fluxes: Coupled Simulations and Analysis Tools

    Science.gov (United States)

    Gorby, M.; Schwadron, N.; Linker, J.; Caplan, R. M.; Wijaya, J.; Downs, C.; Lionello, R.

    2017-12-01

    Presented here is a nuts-and-bolts look at the coupled framework of Predictive Science Inc's Magnetohydrodynamics Around a Sphere (MAS) code and the Energetic Particle Radiation Environment Module (EPREM). MAS simulated coronal mass ejection output from a variety of events can be selected as the MHD input to EPREM and a variety of parameters can be set to run against: bakground seed particle spectra, mean free path, perpendicular diffusion efficiency, etc.. A standard set of visualizations are produced as well as a library of analysis tools for deeper inquiries. All steps will be covered end-to-end as well as the framework's user interface and availability.

  3. A design and performance analysis tool for superconducting RF systems

    International Nuclear Information System (INIS)

    Schilcher, T.; Simrock, S.N.; Merminga, L.; Wang, D.X.

    1997-01-01

    Superconducting rf systems are usually operated with continuous rf power or with rf pulse lengths exceeding 1 ms to maximize the overall wall plug power efficiency. Typical examples are CEBAF at the Thomas Jefferson National Accelerator Facility (Jefferson Lab) and the TESLA Test Facility at DESY. The long pulses allow for effective application of feedback to stabilize the accelerating field in presence of microphonics, Lorentz force detuning, and fluctuations of the beam current. In this paper the authors describe a set of tools to be used with MATLAB and SIMULINK, which allow to analyze the quality of field regulation for a given design. The tools include models for the cavities, the rf power source, the beam, sources of field perturbations, and the rf feedback system. The rf control relevant electrical and mechanical characteristics of the cavity are described in form of time-varying state space models. The power source is modeled as a current generator and includes saturation characteristics and noise.An arbitrary time structure can be imposed on the beam current to reflect a macro-pulse structure and bunch charge fluctuations. For rf feedback several schemes can be selected: Traditional amplitude and phase control as well as I/Q control. The choices for the feedback controller include analog or digital approaches and various choices of frequency response. Feed forward can be added to further suppress repetitive errors. The results of a performance analysis of the CEBAF and the TESLA Linac rf system using these tools are presented

  4. Adapting the capacities and vulnerabilities approach: a gender analysis tool.

    Science.gov (United States)

    Birks, Lauren; Powell, Christopher; Hatfield, Jennifer

    2017-12-01

    Gender analysis methodology is increasingly being considered as essential to health research because 'women's social, economic and political status undermine their ability to protect and promote their own physical, emotional and mental health, including their effective use of health information and services' {World Health Organization [Gender Analysis in Health: a review of selected tools. 2003; www.who.int/gender/documents/en/Gender. pdf (20 February 2008, date last accessed)]}. By examining gendered roles, responsibilities and norms through the lens of gender analysis, we can develop an in-depth understanding of social power differentials, and be better able to address gender inequalities and inequities within institutions and between men and women. When conducting gender analysis, tools and frameworks may help to aid community engagement and to provide a framework to ensure that relevant gendered nuances are assessed. The capacities and vulnerabilities approach (CVA) is one such gender analysis framework that critically considers gender and its associated roles, responsibilities and power dynamics in a particular community and seeks to meet a social need of that particular community. Although the original intent of the CVA was to guide humanitarian intervention and disaster preparedness, we adapted this framework to a different context, which focuses on identifying and addressing emerging problems and social issues in a particular community or area that affect their specific needs, such as an infectious disease outbreak or difficulty accessing health information and resources. We provide an example of our CVA adaptation, which served to facilitate a better understanding of how health-related disparities affect Maasai women in a remote, resource-poor setting in Northern Tanzania. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

  5. Developing a tool for assessing competency in root cause analysis.

    Science.gov (United States)

    Gupta, Priyanka; Varkey, Prathibha

    2009-01-01

    Root cause analysis (RCA) is a tool for identifying the key cause(s) contributing to a sentinel event or near miss. Although training in RCA is gaining popularity in medical education, there is no published literature on valid or reliable methods for assessing competency in the same. A tool for assessing competency in RCA was pilot tested as part of an eight-station Objective Structured Clinical Examination that was conducted at the completion of a three-week quality improvement (QI) curriculum for the Mayo Clinic Preventive Medicine and Endocrinology fellowship programs. As part of the curriculum, fellows completed a QI project to enhance physician communication of the diagnosis and treatment plan at the end of a patient visit. They had a didactic session on RCA, followed by process mapping of the information flow at the project clinic, after which fellows conducted an actual RCA using the Ishikawa fishbone diagram. For the RCA competency assessment, fellows performed an RCA regarding a scenario describing an adverse medication event and provided possible solutions to prevent such errors in the future. All faculty strongly agreed or agreed that they were able to accurately assess competency in RCA using the tool. Interrater reliability for the global competency rating and checklist scoring were 0.96 and 0.85, respectively. Internal consistency (Cronbach's alpha) was 0.76. Six of eight of the fellows found the difficulty level of the test to be optimal. Assessment methods must accompany education programs to ensure that graduates are competent in QI methodologies and are able to apply them effectively in the workplace. The RCA assessment tool was found to be a valid, reliable, feasible, and acceptable method for assessing competency in RCA. Further research is needed to examine its predictive validity and generalizability.

  6. Tools for integrated sequence-structure analysis with UCSF Chimera

    Directory of Open Access Journals (Sweden)

    Huang Conrad C

    2006-07-01

    Full Text Available Abstract Background Comparing related structures and viewing the structures in the context of sequence alignments are important tasks in protein structure-function research. While many programs exist for individual aspects of such work, there is a need for interactive visualization tools that: (a provide a deep integration of sequence and structure, far beyond mapping where a sequence region falls in the structure and vice versa; (b facilitate changing data of one type based on the other (for example, using only sequence-conserved residues to match structures, or adjusting a sequence alignment based on spatial fit; (c can be used with a researcher's own data, including arbitrary sequence alignments and annotations, closely or distantly related sets of proteins, etc.; and (d interoperate with each other and with a full complement of molecular graphics features. We describe enhancements to UCSF Chimera to achieve these goals. Results The molecular graphics program UCSF Chimera includes a suite of tools for interactive analyses of sequences and structures. Structures automatically associate with sequences in imported alignments, allowing many kinds of crosstalk. A novel method is provided to superimpose structures in the absence of a pre-existing sequence alignment. The method uses both sequence and secondary structure, and can match even structures with very low sequence identity. Another tool constructs structure-based sequence alignments from superpositions of two or more proteins. Chimera is designed to be extensible, and mechanisms for incorporating user-specific data without Chimera code development are also provided. Conclusion The tools described here apply to many problems involving comparison and analysis of protein structures and their sequences. Chimera includes complete documentation and is intended for use by a wide range of scientists, not just those in the computational disciplines. UCSF Chimera is free for non-commercial use and is

  7. A survey of tools for the analysis of quantitative PCR (qPCR data

    Directory of Open Access Journals (Sweden)

    Stephan Pabinger

    2014-09-01

    Our comprehensive survey showed that most tools use their own file format and only a fraction of the currently existing tools support the standardized data exchange format RDML. To allow a more streamlined and comparable analysis of qPCR data, more vendors and tools need to adapt the standardized format to encourage the exchange of data between instrument software, analysis tools, and researchers.

  8. Analysis tools for the interplay between genome layout and regulation.

    Science.gov (United States)

    Bouyioukos, Costas; Elati, Mohamed; Képès, François

    2016-06-06

    Genome layout and gene regulation appear to be interdependent. Understanding this interdependence is key to exploring the dynamic nature of chromosome conformation and to engineering functional genomes. Evidence for non-random genome layout, defined as the relative positioning of either co-functional or co-regulated genes, stems from two main approaches. Firstly, the analysis of contiguous genome segments across species, has highlighted the conservation of gene arrangement (synteny) along chromosomal regions. Secondly, the study of long-range interactions along a chromosome has emphasised regularities in the positioning of microbial genes that are co-regulated, co-expressed or evolutionarily correlated. While one-dimensional pattern analysis is a mature field, it is often powerless on biological datasets which tend to be incomplete, and partly incorrect. Moreover, there is a lack of comprehensive, user-friendly tools to systematically analyse, visualise, integrate and exploit regularities along genomes. Here we present the Genome REgulatory and Architecture Tools SCAN (GREAT:SCAN) software for the systematic study of the interplay between genome layout and gene expression regulation. SCAN is a collection of related and interconnected applications currently able to perform systematic analyses of genome regularities as well as to improve transcription factor binding sites (TFBS) and gene regulatory network predictions based on gene positional information. We demonstrate the capabilities of these tools by studying on one hand the regular patterns of genome layout in the major regulons of the bacterium Escherichia coli. On the other hand, we demonstrate the capabilities to improve TFBS prediction in microbes. Finally, we highlight, by visualisation of multivariate techniques, the interplay between position and sequence information for effective transcription regulation.

  9. CGHPRO – A comprehensive data analysis tool for array CGH

    Directory of Open Access Journals (Sweden)

    Lenzner Steffen

    2005-04-01

    Full Text Available Abstract Background Array CGH (Comparative Genomic Hybridisation is a molecular cytogenetic technique for the genome wide detection of chromosomal imbalances. It is based on the co-hybridisation of differentially labelled test and reference DNA onto arrays of genomic BAC clones, cDNAs or oligonucleotides, and after correction for various intervening variables, loss or gain in the test DNA can be indicated from spots showing aberrant signal intensity ratios. Now that this technique is no longer confined to highly specialized laboratories and is entering the realm of clinical application, there is a need for a user-friendly software package that facilitates estimates of DNA dosage from raw signal intensities obtained by array CGH experiments, and which does not depend on a sophisticated computational environment. Results We have developed a user-friendly and versatile tool for the normalization, visualization, breakpoint detection and comparative analysis of array-CGH data. CGHPRO is a stand-alone JAVA application that guides the user through the whole process of data analysis. The import option for image analysis data covers several data formats, but users can also customize their own data formats. Several graphical representation tools assist in the selection of the appropriate normalization method. Intensity ratios of each clone can be plotted in a size-dependent manner along the chromosome ideograms. The interactive graphical interface offers the chance to explore the characteristics of each clone, such as the involvement of the clones sequence in segmental duplications. Circular Binary Segmentation and unsupervised Hidden Markov Model algorithms facilitate objective detection of chromosomal breakpoints. The storage of all essential data in a back-end database allows the simultaneously comparative analysis of different cases. The various display options facilitate also the definition of shortest regions of overlap and simplify the

  10. A new tool for accelerator system modeling and analysis

    International Nuclear Information System (INIS)

    Gillespie, G.H.; Hill, B.W.; Jameson, R.A.

    1994-01-01

    A novel computer code is being developed to generate system level designs of radiofrequency ion accelerators. The goal of the Accelerator System Model (ASM) code is to create a modeling and analysis tool that is easy to use, automates many of the initial design calculations, supports trade studies used in assessing alternate designs and yet is flexible enough to incorporate new technology concepts as they emerge. Hardware engineering parameters and beam dynamics are modeled at comparable levels of fidelity. Existing scaling models of accelerator subsystems were sued to produce a prototype of ASM (version 1.0) working within the Shell for Particle Accelerator Related Codes (SPARC) graphical user interface. A small user group has been testing and evaluating the prototype for about a year. Several enhancements and improvements are now being developed. The current version (1.1) of ASM is briefly described and an example of the modeling and analysis capabilities is illustrated

  11. Automated sensitivity analysis: New tools for modeling complex dynamic systems

    International Nuclear Information System (INIS)

    Pin, F.G.

    1987-01-01

    Sensitivity analysis is an established methodology used by researchers in almost every field to gain essential insight in design and modeling studies and in performance assessments of complex systems. Conventional sensitivity analysis methodologies, however, have not enjoyed the widespread use they deserve considering the wealth of information they can provide, partly because of their prohibitive cost or the large initial analytical investment they require. Automated systems have recently been developed at ORNL to eliminate these drawbacks. Compilers such as GRESS and EXAP now allow automatic and cost effective calculation of sensitivities in FORTRAN computer codes. In this paper, these and other related tools are described and their impact and applicability in the general areas of modeling, performance assessment and decision making for radioactive waste isolation problems are discussed

  12. Message Correlation Analysis Tool for NOvA

    CERN Multimedia

    CERN. Geneva

    2012-01-01

    A complex running system, such as the NOvA online data acquisition, consists of a large number of distributed but closely interacting components. This paper describes a generic realtime correlation analysis and event identification engine, named Message Analyzer. Its purpose is to capture run time abnormalities and recognize system failures based on log messages from participating components. The initial design of analysis engine is driven by the DAQ of the NOvA experiment. The Message Analyzer performs filtering and pattern recognition on the log messages and reacts to system failures identified by associated triggering rules. The tool helps the system maintain a healthy running state and to minimize data corruption. This paper also describes a domain specific language that allows the recognition patterns and correlation rules to be specified in a clear and flexible way. In addition, the engine provides a plugin mechanism for users to implement specialized patterns or rules in generic languages such as C++.

  13. Message Correlation Analysis Tool for NOvA

    International Nuclear Information System (INIS)

    Lu Qiming; Biery, Kurt A; Kowalkowski, James B

    2012-01-01

    A complex running system, such as the NOvA online data acquisition, consists of a large number of distributed but closely interacting components. This paper describes a generic real-time correlation analysis and event identification engine, named Message Analyzer. Its purpose is to capture run time abnormalities and recognize system failures based on log messages from participating components. The initial design of analysis engine is driven by the data acquisition (DAQ) of the NOvA experiment. The Message Analyzer performs filtering and pattern recognition on the log messages and reacts to system failures identified by associated triggering rules. The tool helps the system maintain a healthy running state and to minimize data corruption. This paper also describes a domain specific language that allows the recognition patterns and correlation rules to be specified in a clear and flexible way. In addition, the engine provides a plugin mechanism for users to implement specialized patterns or rules in generic languages such as C++.

  14. Net energy analysis - powerful tool for selecting elective power options

    Energy Technology Data Exchange (ETDEWEB)

    Baron, S. [Brookhaven National Laboratory, Upton, NY (United States)

    1995-12-01

    A number of net energy analysis studies have been conducted in recent years for electric power production from coal, oil and uranium fuels; synthetic fuels from coal and oil shale; and heat and electric power from solar energy. This technique is an excellent indicator of investment costs, environmental impact and potential economic competitiveness of alternative electric power systems for energy planners from the Eastern European countries considering future options. Energy conservation is also important to energy planners and the net energy analysis technique is an excellent accounting system on the extent of energy resource conservation. The author proposes to discuss the technique and to present the results of his studies and others in the field. The information supplied to the attendees will serve as a powerful tool to the energy planners considering their electric power options in the future.

  15. Message correlation analysis tool for NOvA

    Energy Technology Data Exchange (ETDEWEB)

    Lu, Qiming [Fermilab; Biery, Kurt A. [Fermilab; Kowalkowski, James B. [Fermilab

    2012-01-01

    A complex running system, such as the NOvA online data acquisition, consists of a large number of distributed but closely interacting components. This paper describes a generic real-time correlation analysis and event identification engine, named Message Analyzer. Its purpose is to capture run time abnormalities and recognize system failures based on log messages from participating components. The initial design of analysis engine is driven by the data acquisition (DAQ) of the NOvA experiment. The Message Analyzer performs filtering and pattern recognition on the log messages and reacts to system failures identified by associated triggering rules. The tool helps the system maintain a healthy running state and to minimize data corruption. This paper also describes a domain specific language that allows the recognition patterns and correlation rules to be specified in a clear and flexible way. In addition, the engine provides a plugin mechanism for users to implement specialized patterns or rules in generic languages such as C++.

  16. Mechanical System Analysis/Design Tool (MSAT) Quick Guide

    Science.gov (United States)

    Lee, HauHua; Kolb, Mark; Madelone, Jack

    1998-01-01

    MSAT is a unique multi-component multi-disciplinary tool that organizes design analysis tasks around object-oriented representations of configuration components, analysis programs and modules, and data transfer links between them. This creative modular architecture enables rapid generation of input stream for trade-off studies of various engine configurations. The data transfer links automatically transport output from one application as relevant input to the next application once the sequence is set up by the user. The computations are managed via constraint propagation - the constraints supplied by the user as part of any optimization module. The software can be used in the preliminary design stage as well as during the detail design of product development process.

  17. GANALYZER: A TOOL FOR AUTOMATIC GALAXY IMAGE ANALYSIS

    International Nuclear Information System (INIS)

    Shamir, Lior

    2011-01-01

    We describe Ganalyzer, a model-based tool that can automatically analyze and classify galaxy images. Ganalyzer works by separating the galaxy pixels from the background pixels, finding the center and radius of the galaxy, generating the radial intensity plot, and then computing the slopes of the peaks detected in the radial intensity plot to measure the spirality of the galaxy and determine its morphological class. Unlike algorithms that are based on machine learning, Ganalyzer is based on measuring the spirality of the galaxy, a task that is difficult to perform manually, and in many cases can provide a more accurate analysis compared to manual observation. Ganalyzer is simple to use, and can be easily embedded into other image analysis applications. Another advantage is its speed, which allows it to analyze ∼10,000,000 galaxy images in five days using a standard modern desktop computer. These capabilities can make Ganalyzer a useful tool in analyzing large data sets of galaxy images collected by autonomous sky surveys such as SDSS, LSST, or DES. The software is available for free download at http://vfacstaff.ltu.edu/lshamir/downloads/ganalyzer, and the data used in the experiment are available at http://vfacstaff.ltu.edu/lshamir/downloads/ganalyzer/GalaxyImages.zip.

  18. Ganalyzer: A Tool for Automatic Galaxy Image Analysis

    Science.gov (United States)

    Shamir, Lior

    2011-08-01

    We describe Ganalyzer, a model-based tool that can automatically analyze and classify galaxy images. Ganalyzer works by separating the galaxy pixels from the background pixels, finding the center and radius of the galaxy, generating the radial intensity plot, and then computing the slopes of the peaks detected in the radial intensity plot to measure the spirality of the galaxy and determine its morphological class. Unlike algorithms that are based on machine learning, Ganalyzer is based on measuring the spirality of the galaxy, a task that is difficult to perform manually, and in many cases can provide a more accurate analysis compared to manual observation. Ganalyzer is simple to use, and can be easily embedded into other image analysis applications. Another advantage is its speed, which allows it to analyze ~10,000,000 galaxy images in five days using a standard modern desktop computer. These capabilities can make Ganalyzer a useful tool in analyzing large data sets of galaxy images collected by autonomous sky surveys such as SDSS, LSST, or DES. The software is available for free download at http://vfacstaff.ltu.edu/lshamir/downloads/ganalyzer, and the data used in the experiment are available at http://vfacstaff.ltu.edu/lshamir/downloads/ganalyzer/GalaxyImages.zip.

  19. The Climate Data Analysis Tools (CDAT): Scientific Discovery Made Easy

    Science.gov (United States)

    Doutriaux, C. M.; Williams, D. N.; Drach, R. S.; McCoy, R. B.; Mlaker, V.

    2008-12-01

    In recent years, amount of data available to climate scientists has grown exponentially. Whether we're looking at the increasing number of organizations providing data, the finer resolutions of climate models, or the escalating number of experiments and realizations for those experiments, every aspect of climate research leads to an unprecedented growth of the volume of data to analyze. The recent success and visibility of the Intergovernmental Panel on Climate Change Annual Report 4 (IPCC AR4) is boosting the demand to unprecedented levels and keeping the numbers increasing. Meanwhile, technology available for scientists to analyze the data has remained largely unchanged since the early days. One tool, however, has proven itself flexible enough not only to follow the trend of escalating demand, but also to be ahead of the game: the Climate Data Analysis Tools (CDAT) from the Program for Climate Model Diagnosis and Comparison (PCMDI). While providing the cutting edge technology necessary to distribute the IPCC AR4 data via the Earth System Grid, PCMDI has continuously evolved CDAT to handle new grids and higher definitions, and provide new diagnostics. In the near future, in time for AR5, PCMDI will use CDAT for state-of-the-art remote data analysis in a grid computing environment.

  20. Performance Analysis, Modeling and Scaling of HPC Applications and Tools

    Energy Technology Data Exchange (ETDEWEB)

    Bhatele, Abhinav [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2016-01-13

    E cient use of supercomputers at DOE centers is vital for maximizing system throughput, mini- mizing energy costs and enabling science breakthroughs faster. This requires complementary e orts along several directions to optimize the performance of scienti c simulation codes and the under- lying runtimes and software stacks. This in turn requires providing scalable performance analysis tools and modeling techniques that can provide feedback to physicists and computer scientists developing the simulation codes and runtimes respectively. The PAMS project is using time allocations on supercomputers at ALCF, NERSC and OLCF to further the goals described above by performing research along the following fronts: 1. Scaling Study of HPC applications; 2. Evaluation of Programming Models; 3. Hardening of Performance Tools; 4. Performance Modeling of Irregular Codes; and 5. Statistical Analysis of Historical Performance Data. We are a team of computer and computational scientists funded by both DOE/NNSA and DOE/ ASCR programs such as ECRP, XStack (Traleika Glacier, PIPER), ExaOSR (ARGO), SDMAV II (MONA) and PSAAP II (XPACC). This allocation will enable us to study big data issues when analyzing performance on leadership computing class systems and to assist the HPC community in making the most e ective use of these resources.

  1. XQCAT eXtra Quark Combined Analysis Tool

    CERN Document Server

    Barducci, D; Buchkremer, M; Marrouche, J; Moretti, S; Panizzi, L

    2015-01-01

    XQCAT (eXtra Quark Combined Analysis Tool) is a tool aimed to determine exclusion Confidence Levels (eCLs) for scenarios of new physics characterised by the presence of one or multiple heavy extra quarks (XQ) which interact through Yukawa couplings with any of the Standard Model (SM) quarks. The code uses a database of efficiencies for pre-simulated processes of Quantum Chromo-Dynamics (QCD) pair production and on-shell decays of extra quarks. In the version 1.0 of XQCAT the efficiencies have been computed for a set of seven publicly available search results by the CMS experiment, and the package is subject to future updates to include further searches by both ATLAS and CMS collaborations. The input for the code is a text file in which masses, branching ratios (BRs) and dominant chirality of the couplings of the new quarks are provided. The output of the code is the eCL of the test point for each implemented experimental analysis considered individually and, when possible, in statistical combination.

  2. Simple Strategic Analysis Tools at SMEs in Ecuador

    Directory of Open Access Journals (Sweden)

    Diego H. Álvarez Peralta

    2015-06-01

    Full Text Available This article explores the possible applications of Strategic Analysis Tools (SAT in SMEs located in emerging countries such as Ecuador (where there are no formal studies on the subject. It is intended to analyze if whether or not it is feasible to effectively apply a set of proposed tools to guide mental map decisions of executives when decisions on strategy have to be made. Through an in-depth review of the state of the art in regards to SAT and interviews performed to main participants such as chambers and executives of different firms, it is shown the feasibility of their application. This analysis is complemented with specialists´ interviews to deepen our insights and obtaining valid conclusions. Our conclusion is that SMEs can smoothly develop and apply an appropriate set of SAT when opting for very relevant choices. However, there are some inconveniences to be solved which are connected with resources (such as peoples’ abilities and technology and behavioral (cultural factors and methodological processes.Once these barriers are knocked down, it would be more likely to enrich current approaches to make strategic decisions even more effective. This is a qualitative investigation and the research design is not experimental (among them it is transversal as it relates to a specific moment in time.

  3. Objective breast symmetry analysis with the breast analyzing tool (BAT): improved tool for clinical trials.

    Science.gov (United States)

    Krois, Wilfried; Romar, Alexander Ken; Wild, Thomas; Dubsky, Peter; Exner, Ruth; Panhofer, Peter; Jakesz, Raimund; Gnant, Michael; Fitzal, Florian

    2017-07-01

    Objective cosmetic analysis is important to evaluate the cosmetic outcome after breast surgery or breast radiotherapy. For this purpose, we aimed to improve our recently developed objective scoring software, the Breast Analyzing Tool (BAT ® ). A questionnaire about important factors for breast symmetry was handed out to ten experts (surgeons) and eight non-experts (students). Using these factors, the first-generation BAT ® software formula has been modified and the breast symmetry index (BSI) from 129 women after breast surgery has been calculated by the first author with this new BAT ® formula. The resulting BSI values of these 129 breast cancer patients were then correlated with subjective symmetry scores from the 18 observers using the Harris scale. The BSI of ten images was also calculated from five observers different from the first author to calculate inter-rater reliability. In a second phase, the new BAT ® formula was validated and correlated with subjective scores of additional 50 women after breast surgery. The inter-rater reliability analysis of the objective evaluation by the BAT ® from five individuals showed an ICC of 0.992 with almost no difference between different observers. All subjective scores of 50 patients correlated with the modified BSI score with a high Pearson correlation coefficient of 0.909 (p BAT ® software improves the correlation between subjective and objective BSI values, and may be a new standard for trials evaluating breast symmetry.

  4. ELECTRA © Launch and Re-Entry Safety Analysis Tool

    Science.gov (United States)

    Lazare, B.; Arnal, M. H.; Aussilhou, C.; Blazquez, A.; Chemama, F.

    2010-09-01

    French Space Operation Act gives as prime objective to National Technical Regulations to protect people, properties, public health and environment. In this frame, an independent technical assessment of French space operation is delegated to CNES. To perform this task and also for his owns operations CNES needs efficient state-of-the-art tools for evaluating risks. The development of the ELECTRA© tool, undertaken in 2007, meets the requirement for precise quantification of the risks involved in launching and re-entry of spacecraft. The ELECTRA© project draws on the proven expertise of CNES technical centers in the field of flight analysis and safety, spaceflight dynamics and the design of spacecraft. The ELECTRA© tool was specifically designed to evaluate the risks involved in the re-entry and return to Earth of all or part of a spacecraft. It will also be used for locating and visualizing nominal or accidental re-entry zones while comparing them with suitable geographic data such as population density, urban areas, and shipping lines, among others. The method chosen for ELECTRA© consists of two main steps: calculating the possible reentry trajectories for each fragment after the spacecraft breaks up; calculating the risks while taking into account the energy of the fragments, the population density and protection afforded by buildings. For launch operations and active re-entry, the risk calculation will be weighted by the probability of instantaneous failure of the spacecraft and integrated for the whole trajectory. ELECTRA©’s development is today at the end of the validation phase, last step before delivery to users. Validation process has been performed in different ways: numerical application way for the risk formulation; benchmarking process for casualty area, level of energy of the fragments entries and level of protection housing module; best practices in space transportation industries concerning dependability evaluation; benchmarking process for

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

    Science.gov (United States)

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

    2017-12-01

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

  6. msBiodat analysis tool, big data analysis for high-throughput experiments.

    Science.gov (United States)

    Muñoz-Torres, Pau M; Rokć, Filip; Belužic, Robert; Grbeša, Ivana; Vugrek, Oliver

    2016-01-01

    Mass spectrometry (MS) are a group of a high-throughput techniques used to increase knowledge about biomolecules. They produce a large amount of data which is presented as a list of hundreds or thousands of proteins. Filtering those data efficiently is the first step for extracting biologically relevant information. The filtering may increase interest by merging previous data with the data obtained from public databases, resulting in an accurate list of proteins which meet the predetermined conditions. In this article we present msBiodat Analysis Tool, a web-based application thought to approach proteomics to the big data analysis. With this tool, researchers can easily select the most relevant information from their MS experiments using an easy-to-use web interface. An interesting feature of msBiodat analysis tool is the possibility of selecting proteins by its annotation on Gene Ontology using its Gene Id, ensembl or UniProt codes. The msBiodat analysis tool is a web-based application that allows researchers with any programming experience to deal with efficient database querying advantages. Its versatility and user-friendly interface makes easy to perform fast and accurate data screening by using complex queries. Once the analysis is finished, the result is delivered by e-mail. msBiodat analysis tool is freely available at http://msbiodata.irb.hr.

  7. Analysis and specification tools in relation to the APSE

    Science.gov (United States)

    Hendricks, John W.

    1986-01-01

    Ada and the Ada Programming Support Environment (APSE) specifically address the phases of the system/software life cycle which follow after the user's problem was translated into system and software development specifications. The waterfall model of the life cycle identifies the analysis and requirements definition phases as preceeding program design and coding. Since Ada is a programming language and the APSE is a programming support environment, they are primarily targeted to support program (code) development, tecting, and maintenance. The use of Ada based or Ada related specification languages (SLs) and program design languages (PDLs) can extend the use of Ada back into the software design phases of the life cycle. Recall that the standardization of the APSE as a programming support environment is only now happening after many years of evolutionary experience with diverse sets of programming support tools. Restricting consideration to one, or even a few chosen specification and design tools, could be a real mistake for an organization or a major project such as the Space Station, which will need to deal with an increasingly complex level of system problems. To require that everything be Ada-like, be implemented in Ada, run directly under the APSE, and fit into a rigid waterfall model of the life cycle would turn a promising support environment into a straight jacket for progress.

  8. Revisiting corpus creation and analysis tools for translation tasks

    Directory of Open Access Journals (Sweden)

    Claudio Fantinuoli

    2016-06-01

    Full Text Available Many translation scholars have proposed the use of corpora to allow professional translators to produce high quality texts which read like originals. Yet, the diffusion of this methodology has been modest, one reason being the fact that software for corpora analyses have been developed with the linguist in mind, which means that they are generally complex and cumbersome, offering many advanced features, but lacking the level of usability and the specific features that meet translators’ needs. To overcome this shortcoming, we have developed TranslatorBank, a free corpus creation and analysis tool designed for translation tasks. TranslatorBank supports the creation of specialized monolingual corpora from the web; it includes a concordancer with a query system similar to a search engine; it uses basic statistical measures to indicate the reliability of results; it accesses the original documents directly for more contextual information; it includes a statistical and linguistic terminology extraction utility to extract the relevant terminology of the domain and the typical collocations of a given term. Designed to be easy and intuitive to use, the tool may help translation students as well as professionals to increase their translation quality by adhering to the specific linguistic variety of the target text corpus.

  9. Multi-Mission Power Analysis Tool (MMPAT) Version 3

    Science.gov (United States)

    Wood, Eric G.; Chang, George W.; Chen, Fannie C.

    2012-01-01

    The Multi-Mission Power Analysis Tool (MMPAT) simulates a spacecraft power subsystem including the power source (solar array and/or radioisotope thermoelectric generator), bus-voltage control, secondary battery (lithium-ion or nickel-hydrogen), thermostatic heaters, and power-consuming equipment. It handles multiple mission types including heliocentric orbiters, planetary orbiters, and surface operations. Being parametrically driven along with its user-programmable features can reduce or even eliminate any need for software modifications when configuring it for a particular spacecraft. It provides multiple levels of fidelity, thereby fulfilling the vast majority of a project s power simulation needs throughout the lifecycle. It can operate in a stand-alone mode with a graphical user interface, in batch mode, or as a library linked with other tools. This software can simulate all major aspects of a spacecraft power subsystem. It is parametrically driven to reduce or eliminate the need for a programmer. Added flexibility is provided through user-designed state models and table-driven parameters. MMPAT is designed to be used by a variety of users, such as power subsystem engineers for sizing power subsystem components; mission planners for adjusting mission scenarios using power profiles generated by the model; system engineers for performing system- level trade studies using the results of the model during the early design phases of a spacecraft; and operations personnel for high-fidelity modeling of the essential power aspect of the planning picture.

  10. Revisiting corpus creation and analysis tools for translation tasks

    Directory of Open Access Journals (Sweden)

    Claudio Fantinuoli

    2016-04-01

    Many translation scholars have proposed the use of corpora to allow professional translators to produce high quality texts which read like originals. Yet, the diffusion of this methodology has been modest, one reason being the fact that software for corpora analyses have been developed with the linguist in mind, which means that they are generally complex and cumbersome, offering many advanced features, but lacking the level of usability and the specific features that meet translators’ needs. To overcome this shortcoming, we have developed TranslatorBank, a free corpus creation and analysis tool designed for translation tasks. TranslatorBank supports the creation of specialized monolingual corpora from the web; it includes a concordancer with a query system similar to a search engine; it uses basic statistical measures to indicate the reliability of results; it accesses the original documents directly for more contextual information; it includes a statistical and linguistic terminology extraction utility to extract the relevant terminology of the domain and the typical collocations of a given term. Designed to be easy and intuitive to use, the tool may help translation students as well as professionals to increase their translation quality by adhering to the specific linguistic variety of the target text corpus.

  11. Abstract Interfaces for Data Analysis Component Architecture for Data Analysis Tools

    CERN Document Server

    Barrand, G; Dönszelmann, M; Johnson, A; Pfeiffer, A

    2001-01-01

    The fast turnover of software technologies, in particular in the domain of interactivity (covering user interface and visualisation), makes it difficult for a small group of people to produce complete and polished software-tools before the underlying technologies make them obsolete. At the HepVis '99 workshop, a working group has been formed to improve the production of software tools for data analysis in HENP. Beside promoting a distributed development organisation, one goal of the group is to systematically design a set of abstract interfaces based on using modern OO analysis and OO design techniques. An initial domain analysis has come up with several categories (components) found in typical data analysis tools: Histograms, Ntuples, Functions, Vectors, Fitter, Plotter, Analyzer and Controller. Special emphasis was put on reducing the couplings between the categories to a minimum, thus optimising re-use and maintainability of any component individually. The interfaces have been defined in Java and C++ and i...

  12. Natural funnel asymmetries. A simulation analysis of the three basic tools of meta analysis

    DEFF Research Database (Denmark)

    Callot, Laurent Abdelkader Francois; Paldam, Martin

    Meta-analysis studies a set of estimates of one parameter with three basic tools: The funnel diagram is the distribution of the estimates as a function of their precision; the funnel asymmetry test, FAT; and the meta average, where PET is an estimate. The FAT-PET MRA is a meta regression analysis...

  13. Nuclear Fuel Cycle Analysis and Simulation Tool (FAST)

    Energy Technology Data Exchange (ETDEWEB)

    Ko, Won Il; Kwon, Eun Ha; Kim, Ho Dong

    2005-06-15

    This paper describes the Nuclear Fuel Cycle Analysis and Simulation Tool (FAST) which has been developed by the Korea Atomic Energy Research Institute (KAERI). Categorizing various mix of nuclear reactors and fuel cycles into 11 scenario groups, the FAST calculates all the required quantities for each nuclear fuel cycle component, such as mining, conversion, enrichment and fuel fabrication for each scenario. A major advantage of the FAST is that the code employs a MS Excel spread sheet with the Visual Basic Application, allowing users to manipulate it with ease. The speed of the calculation is also quick enough to make comparisons among different options in a considerably short time. This user-friendly simulation code is expected to be beneficial to further studies on the nuclear fuel cycle to find best options for the future all proliferation risk, environmental impact and economic costs considered.

  14. Analysis of Sequence Diagram Layout in Advanced UML Modelling Tools

    Directory of Open Access Journals (Sweden)

    Ņikiforova Oksana

    2016-05-01

    Full Text Available System modelling using Unified Modelling Language (UML is the task that should be solved for software development. The more complex software becomes the higher requirements are stated to demonstrate the system to be developed, especially in its dynamic aspect, which in UML is offered by a sequence diagram. To solve this task, the main attention is devoted to the graphical presentation of the system, where diagram layout plays the central role in information perception. The UML sequence diagram due to its specific structure is selected for a deeper analysis on the elements’ layout. The authors research represents the abilities of modern UML modelling tools to offer automatic layout of the UML sequence diagram and analyse them according to criteria required for the diagram perception.

  15. SINEBase: a database and tool for SINE analysis.

    Science.gov (United States)

    Vassetzky, Nikita S; Kramerov, Dmitri A

    2013-01-01

    SINEBase (http://sines.eimb.ru) integrates the revisited body of knowledge about short interspersed elements (SINEs). A set of formal definitions concerning SINEs was introduced. All available sequence data were screened through these definitions and the genetic elements misidentified as SINEs were discarded. As a result, 175 SINE families have been recognized in animals, flowering plants and green algae. These families were classified by the modular structure of their nucleotide sequences and the frequencies of different patterns were evaluated. These data formed the basis for the database of SINEs. The SINEBase website can be used in two ways: first, to explore the database of SINE families, and second, to analyse candidate SINE sequences using specifically developed tools. This article presents an overview of the database and the process of SINE identification and analysis.

  16. Software Tools for Robust Analysis of High-Dimensional Data

    Directory of Open Access Journals (Sweden)

    Valentin Todorov

    2014-06-01

    Full Text Available The present work discusses robust multivariate methods specifically designed for highdimensions. Their implementation in R is presented and their application is illustratedon examples. The first group are algorithms for outlier detection, already introducedelsewhere and implemented in other packages. The value added of the new package isthat all methods follow the same design pattern and thus can use the same graphicaland diagnostic tools. The next topic covered is sparse principal components including anobject oriented interface to the standard method proposed by Zou, Hastie, and Tibshirani(2006 and the robust one proposed by Croux, Filzmoser, and Fritz (2013. Robust partialleast squares (see Hubert and Vanden Branden 2003 as well as partial least squares fordiscriminant analysis conclude the scope of the new package.

  17. In silico tools for the analysis of antibiotic biosynthetic pathways

    DEFF Research Database (Denmark)

    Weber, Tilmann

    2014-01-01

    Natural products of bacteria and fungi are the most important source for antimicrobial drug leads. For decades, such compounds were exclusively found by chemical/bioactivity-guided screening approaches. The rapid progress in sequencing technologies only recently allowed the development of novel...... screening methods based on the genome sequences of potential producing organisms. The basic principle of such genome mining approaches is to identify genes, which are involved in the biosynthesis of such molecules, and to predict the products of the identified pathways. Thus, bioinformatics methods...... and tools are crucial for genome mining. In this review, a comprehensive overview is given on programs and databases for the identification and analysis of antibiotic biosynthesis gene clusters in genomic data....

  18. PFA toolbox: a MATLAB tool for Metabolic Flux Analysis.

    Science.gov (United States)

    Morales, Yeimy; Bosque, Gabriel; Vehí, Josep; Picó, Jesús; Llaneras, Francisco

    2016-07-11

    Metabolic Flux Analysis (MFA) is a methodology that has been successfully applied to estimate metabolic fluxes in living cells. However, traditional frameworks based on this approach have some limitations, particularly when measurements are scarce and imprecise. This is very common in industrial environments. The PFA Toolbox can be used to face those scenarios. Here we present the PFA (Possibilistic Flux Analysis) Toolbox for MATLAB, which simplifies the use of Interval and Possibilistic Metabolic Flux Analysis. The main features of the PFA Toolbox are the following: (a) It provides reliable MFA estimations in scenarios where only a few fluxes can be measured or those available are imprecise. (b) It provides tools to easily plot the results as interval estimates or flux distributions. (c) It is composed of simple functions that MATLAB users can apply in flexible ways. (d) It includes a Graphical User Interface (GUI), which provides a visual representation of the measurements and their uncertainty. (e) It can use stoichiometric models in COBRA format. In addition, the PFA Toolbox includes a User's Guide with a thorough description of its functions and several examples. The PFA Toolbox for MATLAB is a freely available Toolbox that is able to perform Interval and Possibilistic MFA estimations.

  19. Steam Generator Analysis Tools and Modeling of Degradation Mechanisms

    International Nuclear Information System (INIS)

    Yetisir, M.; Pietralik, J.; Tapping, R.L.

    2004-01-01

    The degradation of steam generators (SGs) has a significant effect on nuclear heat transport system effectiveness and the lifetime and overall efficiency of a nuclear power plant. Hence, quantification of the effects of degradation mechanisms is an integral part of a SG degradation management strategy. Numerical analysis tools such as THIRST, a 3-dimensional (3D) thermal hydraulics code for recirculating SGs; SLUDGE, a 3D sludge prediction code; CHECWORKS a flow-accelerated corrosion prediction code for nuclear piping, PIPO-FE, a SG tube vibration code; and VIBIC and H3DMAP, 3D non-linear finite-element codes to predict SG tube fretting wear can be used to assess the impacts of various maintenance activities on SG thermal performance. These tools are also found to be invaluable at the design stage to influence the design by determining margins or by helping the designers minimize or avoid known degradation mechanisms. In this paper, the aforementioned numerical tools and their application to degradation mechanisms in CANDU recirculating SGs are described. In addition, the following degradation mechanisms are identified and their effect on SG thermal efficiency and lifetime are quantified: primary-side fouling, secondary-side fouling, fretting wear, and flow-accelerated corrosion (FAC). Primary-side tube inner diameter fouling has been a major contributor to SG thermal degradation. Using the results of thermalhydraulic analysis and field data, fouling margins are calculated. Individual effects of primary- and secondary-side fouling are separated through analyses, which allow station operators to decide what type of maintenance activity to perform and when to perform the maintenance activity. Prediction of the fretting-wear rate of tubes allows designers to decide on the number and locations of support plates and U-bend supports. The prediction of FAC rates for SG internals allows designers to select proper materials, and allows operators to adjust the SG maintenance

  20. Web analytics tools and web metrics tools: An overview and comparative analysis

    Directory of Open Access Journals (Sweden)

    Ivan Bekavac

    2015-10-01

    Full Text Available The aim of the paper is to compare and analyze the impact of web analytics tools for measuring the performance of a business model. Accordingly, an overview of web analytics and web metrics tools is given, including their characteristics, main functionalities and available types. The data acquisition approaches and proper choice of web tools for particular business models are also reviewed. The research is divided in two sections. First, a qualitative focus is placed on reviewing web analytics tools to exploring their functionalities and ability to be integrated into the respective business model. Web analytics tools support the business analyst’s efforts in obtaining useful and relevant insights into market dynamics. Thus, generally speaking, selecting a web analytics and web metrics tool should be based on an investigative approach, not a random decision. The second section is a quantitative focus shifting from theory to an empirical approach, and which subsequently presents output data resulting from a study based on perceived user satisfaction of web analytics tools. The empirical study was carried out on employees from 200 Croatian firms from either an either IT or marketing branch. The paper contributes to highlighting the support for management that available web analytics and web metrics tools available on the market have to offer, and based on the growing needs of understanding and predicting global market trends.

  1. STRESS ANALYSIS IN CUTTING TOOLS COATED TiN AND EFFECT OF THE FRICTION COEFFICIENT IN TOOL-CHIP INTERFACE

    Directory of Open Access Journals (Sweden)

    Kubilay ASLANTAŞ

    2003-02-01

    Full Text Available The coated tools are regularly used in today's metal cutting industry. Because, it is well known that thin and hard coatings can reduce tool wear, improve tool life and productivity. Such coatings have significantly contributed to the improvements cutting economies and cutting tool performance through lower tool wear and reduced cutting forces. TiN coatings have especially high strength and low friction coefficients. During the cutting process, low friction coefficient reduce damage in cutting tool. In addition, maximum stress values between coating and substrate also decrease as the friction coefficient decreases. In the present study, stress analysis is carried out for HSS (High Speed Steel cutting tool coated with TiN. The effect of the friction coefficient between tool and chip on the stresses developed at the cutting tool surface and interface of coating and HSS is investigated. Damage zones during cutting process was also attempted to determine. Finite elements method is used for the solution of the problem and FRANC2D finite element program is selected for numerical solutions.

  2. Quantifying traces of tool use: a novel morphometric analysis of damage patterns on percussive tools.

    Directory of Open Access Journals (Sweden)

    Matthew V Caruana

    Full Text Available Percussive technology continues to play an increasingly important role in understanding the evolution of tool use. Comparing the archaeological record with extractive foraging behaviors in nonhuman primates has focused on percussive implements as a key to investigating the origins of lithic technology. Despite this, archaeological approaches towards percussive tools have been obscured by a lack of standardized methodologies. Central to this issue have been the use of qualitative, non-diagnostic techniques to identify percussive tools from archaeological contexts. Here we describe a new morphometric method for distinguishing anthropogenically-generated damage patterns on percussive tools from naturally damaged river cobbles. We employ a geomatic approach through the use of three-dimensional scanning and geographical information systems software to statistically quantify the identification process in percussive technology research. This will strengthen current technological analyses of percussive tools in archaeological frameworks and open new avenues for translating behavioral inferences of early hominins from percussive damage patterns.

  3. Quantifying Traces of Tool Use: A Novel Morphometric Analysis of Damage Patterns on Percussive Tools

    Science.gov (United States)

    Caruana, Matthew V.; Carvalho, Susana; Braun, David R.; Presnyakova, Darya; Haslam, Michael; Archer, Will; Bobe, Rene; Harris, John W. K.

    2014-01-01

    Percussive technology continues to play an increasingly important role in understanding the evolution of tool use. Comparing the archaeological record with extractive foraging behaviors in nonhuman primates has focused on percussive implements as a key to investigating the origins of lithic technology. Despite this, archaeological approaches towards percussive tools have been obscured by a lack of standardized methodologies. Central to this issue have been the use of qualitative, non-diagnostic techniques to identify percussive tools from archaeological contexts. Here we describe a new morphometric method for distinguishing anthropogenically-generated damage patterns on percussive tools from naturally damaged river cobbles. We employ a geomatic approach through the use of three-dimensional scanning and geographical information systems software to statistically quantify the identification process in percussive technology research. This will strengthen current technological analyses of percussive tools in archaeological frameworks and open new avenues for translating behavioral inferences of early hominins from percussive damage patterns. PMID:25415303

  4. MetaFIND: A feature analysis tool for metabolomics data

    Directory of Open Access Journals (Sweden)

    Cunningham Pádraig

    2008-11-01

    Full Text Available Abstract Background Metabolomics, or metabonomics, refers to the quantitative analysis of all metabolites present within a biological sample and is generally carried out using NMR spectroscopy or Mass Spectrometry. Such analysis produces a set of peaks, or features, indicative of the metabolic composition of the sample and may be used as a basis for sample classification. Feature selection may be employed to improve classification accuracy or aid model explanation by establishing a subset of class discriminating features. Factors such as experimental noise, choice of technique and threshold selection may adversely affect the set of selected features retrieved. Furthermore, the high dimensionality and multi-collinearity inherent within metabolomics data may exacerbate discrepancies between the set of features retrieved and those required to provide a complete explanation of metabolite signatures. Given these issues, the latter in particular, we present the MetaFIND application for 'post-feature selection' correlation analysis of metabolomics data. Results In our evaluation we show how MetaFIND may be used to elucidate metabolite signatures from the set of features selected by diverse techniques over two metabolomics datasets. Importantly, we also show how MetaFIND may augment standard feature selection and aid the discovery of additional significant features, including those which represent novel class discriminating metabolites. MetaFIND also supports the discovery of higher level metabolite correlations. Conclusion Standard feature selection techniques may fail to capture the full set of relevant features in the case of high dimensional, multi-collinear metabolomics data. We show that the MetaFIND 'post-feature selection' analysis tool may aid metabolite signature elucidation, feature discovery and inference of metabolic correlations.

  5. Trade-Space Analysis Tool for Constellations (TAT-C)

    Science.gov (United States)

    Le Moigne, Jacqueline; Dabney, Philip; de Weck, Olivier; Foreman, Veronica; Grogan, Paul; Holland, Matthew; Hughes, Steven; Nag, Sreeja

    2016-01-01

    Traditionally, space missions have relied on relatively large and monolithic satellites, but in the past few years, under a changing technological and economic environment, including instrument and spacecraft miniaturization, scalable launchers, secondary launches as well as hosted payloads, there is growing interest in implementing future NASA missions as Distributed Spacecraft Missions (DSM). The objective of our project is to provide a framework that facilitates DSM Pre-Phase A investigations and optimizes DSM designs with respect to a-priori Science goals. In this first version of our Trade-space Analysis Tool for Constellations (TAT-C), we are investigating questions such as: How many spacecraft should be included in the constellation? Which design has the best costrisk value? The main goals of TAT-C are to: Handle multiple spacecraft sharing a mission objective, from SmallSats up through flagships, Explore the variables trade space for pre-defined science, cost and risk goals, and pre-defined metrics Optimize cost and performance across multiple instruments and platforms vs. one at a time.This paper describes the overall architecture of TAT-C including: a User Interface (UI) interacting with multiple users - scientists, missions designers or program managers; an Executive Driver gathering requirements from UI, then formulating Trade-space Search Requests for the Trade-space Search Iterator first with inputs from the Knowledge Base, then, in collaboration with the Orbit Coverage, Reduction Metrics, and Cost Risk modules, generating multiple potential architectures and their associated characteristics. TAT-C leverages the use of the Goddard Mission Analysis Tool (GMAT) to compute coverage and ancillary data, streamlining the computations by modeling orbits in a way that balances accuracy and performance.TAT-C current version includes uniform Walker constellations as well as Ad-Hoc constellations, and its cost model represents an aggregate model consisting of

  6. Thermal buckling comparative analysis using Different FE (Finite Element) tools

    Energy Technology Data Exchange (ETDEWEB)

    Banasiak, Waldemar; Labouriau, Pedro [INTECSEA do Brasil, Rio de Janeiro, RJ (Brazil); Burnett, Christopher [INTECSEA UK, Surrey (United Kingdom); Falepin, Hendrik [Fugro Engineers SA/NV, Brussels (Belgium)

    2009-12-19

    High operational temperature and pressure in offshore pipelines may lead to unexpected lateral movements, sometimes call lateral buckling, which can have serious consequences for the integrity of the pipeline. The phenomenon of lateral buckling in offshore pipelines needs to be analysed in the design phase using FEM. The analysis should take into account many parameters, including operational temperature and pressure, fluid characteristic, seabed profile, soil parameters, coatings of the pipe, free spans etc. The buckling initiation force is sensitive to small changes of any initial geometric out-of-straightness, thus the modeling of the as-laid state of the pipeline is an important part of the design process. Recently some dedicated finite elements programs have been created making modeling of the offshore environment more convenient that has been the case with the use of general purpose finite element software. The present paper aims to compare thermal buckling analysis of sub sea pipeline performed using different finite elements tools, i.e. general purpose programs (ANSYS, ABAQUS) and dedicated software (SAGE Profile 3D) for a single pipeline resting on an the seabed. The analyses considered the pipeline resting on a flat seabed with a small levels of out-of straightness initiating the lateral buckling. The results show the quite good agreement of results of buckling in elastic range and in the conclusions next comparative analyses with sensitivity cases are recommended. (author)

  7. Orienting the Neighborhood: A Subdivision Energy Analysis Tool

    Energy Technology Data Exchange (ETDEWEB)

    Christensen, C.; Horowitz, S.

    2008-01-01

    In subdivisions, house orientations are largely determined by street layout. The resulting house orientations affect energy consumption (annual and on-peak) for heating and cooling, depending on window area distributions and shading from neighboring houses. House orientations also affect energy production (annual and on-peak) from solar thermal and photovoltaic systems, depending on available roof surfaces. Therefore, house orientations fundamentally influence both energy consumption and production, and an appropriate street layout is a prerequisite for taking full advantage of energy efficiency and renewable energy opportunities. The potential influence of street layout on solar performance is often acknowledged, but solar and energy issues must compete with many other criteria and constraints that influence subdivision street layout. When only general guidelines regarding energy are available, these factors may be ignored or have limited effect. Also, typical guidelines are often not site-specific and do not account for local parameters such as climate and the time value of energy. For energy to be given its due consideration in subdivision design, energy impacts need to be accurately quantified and displayed interactively to facilitate analysis of design alternatives. This paper describes a new computerized Subdivision Energy Analysis Tool being developed to allow users to interactively design subdivision street layouts while receiving feedback about energy impacts based on user-specified building design variants and availability of roof surfaces for photovoltaic and solar water heating systems.

  8. Recurrence time statistics: versatile tools for genomic DNA sequence analysis.

    Science.gov (United States)

    Cao, Yinhe; Tung, Wen-Wen; Gao, J B

    2004-01-01

    With the completion of the human and a few model organisms' genomes, and the genomes of many other organisms waiting to be sequenced, it has become increasingly important to develop faster computational tools which are capable of easily identifying the structures and extracting features from DNA sequences. One of the more important structures in a DNA sequence is repeat-related. Often they have to be masked before protein coding regions along a DNA sequence are to be identified or redundant expressed sequence tags (ESTs) are to be sequenced. Here we report a novel recurrence time based method for sequence analysis. The method can conveniently study all kinds of periodicity and exhaustively find all repeat-related features from a genomic DNA sequence. An efficient codon index is also derived from the recurrence time statistics, which has the salient features of being largely species-independent and working well on very short sequences. Efficient codon indices are key elements of successful gene finding algorithms, and are particularly useful for determining whether a suspected EST belongs to a coding or non-coding region. We illustrate the power of the method by studying the genomes of E. coli, the yeast S. cervisivae, the nematode worm C. elegans, and the human, Homo sapiens. Computationally, our method is very efficient. It allows us to carry out analysis of genomes on the whole genomic scale by a PC.

  9. Actigraphy and motion analysis: new tools for psychiatry.

    Science.gov (United States)

    Teicher, M H

    1995-01-01

    Altered locomotor activity is a cardinal sign of several psychiatric disorders. With advances in technology, activity can now be measured precisely. Contemporary studies quantifying activity in psychiatric patients are reviewed. Studies were located by a Medline search (1965 to present; English language only) cross-referencing motor activity and major psychiatric disorders. The review focused on mood disorders and attention-deficit hyperactivity disorder (ADHD). Activity levels are elevated in mania, agitated depression, and ADHD and attenuated in bipolar depression and seasonal depression. The percentage of low-level daytime activity is directly related to severity of depression, and change in this parameter accurately mirrors recovery. Demanding cognitive tasks elicit fidgeting in children with ADHD, and precise measures of activity and attention may provide a sensitive and specific marker for this disorder. Circadian rhythm analysis enhances the sophistication of activity measures. Affective disorders in children and adolescents are characterized by an attenuated circadian rhythm and an enhanced 12-hour harmonic rhythm (diurnal variation). Circadian analysis may help to distinguish between the activity patterns of mania (dysregulated) and ADHD (intact or enhanced). Persistence of hyperactivity or circadian dysregulation in bipolar patients treated with lithium appears to predict rapid relapse once medication is discontinued. Activity monitoring is a valuable research tool, with the potential to aid clinicians in diagnosis and in prediction of treatment response.

  10. Distortion Analysis Toolkit—A Software Tool for Easy Analysis of Nonlinear Audio Systems

    Directory of Open Access Journals (Sweden)

    Jyri Pakarinen

    2010-01-01

    Full Text Available Several audio effects devices deliberately add nonlinear distortion to the processed signal in order to create a desired sound. When creating virtual analog models of nonlinearly distorting devices, it would be very useful to carefully analyze the type of distortion, so that the model could be made as realistic as possible. While traditional system analysis tools such as the frequency response give detailed information on the operation of linear and time-invariant systems, they are less useful for analyzing nonlinear devices. Furthermore, although there do exist separate algorithms for nonlinear distortion analysis, there is currently no unified, easy-to-use tool for rapid analysis of distorting audio systems. This paper offers a remedy by introducing a new software tool for easy analysis of distorting effects. A comparison between a well-known guitar tube amplifier and two commercial software simulations is presented as a case study. This freely available software is written in Matlab language, but the analysis tool can also run as a standalone program, so the user does not need to have Matlab installed in order to perform the analysis.

  11. Abstract interfaces for data analysis - component architecture for data analysis tools

    International Nuclear Information System (INIS)

    Barrand, G.; Binko, P.; Doenszelmann, M.; Pfeiffer, A.; Johnson, A.

    2001-01-01

    The fast turnover of software technologies, in particular in the domain of interactivity (covering user interface and visualisation), makes it difficult for a small group of people to produce complete and polished software-tools before the underlying technologies make them obsolete. At the HepVis'99 workshop, a working group has been formed to improve the production of software tools for data analysis in HENP. Beside promoting a distributed development organisation, one goal of the group is to systematically design a set of abstract interfaces based on using modern OO analysis and OO design techniques. An initial domain analysis has come up with several categories (components) found in typical data analysis tools: Histograms, Ntuples, Functions, Vectors, Fitter, Plotter, analyzer and Controller. Special emphasis was put on reducing the couplings between the categories to a minimum, thus optimising re-use and maintainability of any component individually. The interfaces have been defined in Java and C++ and implementations exist in the form of libraries and tools using C++ (Anaphe/Lizard, OpenScientist) and Java (Java Analysis Studio). A special implementation aims at accessing the Java libraries (through their Abstract Interfaces) from C++. The authors give an overview of the architecture and design of the various components for data analysis as discussed in AIDA

  12. Fatigue in cold-forging dies: Tool life analysis

    DEFF Research Database (Denmark)

    Skov-Hansen, P.; Bay, Niels; Grønbæk, J.

    1999-01-01

    In the present investigation it is shown how the tool life of heavily loaded cold-forging dies can be predicted. Low-cycle fatigue and fatigue crack growth testing of the tool materials are used in combination with finite element modelling to obtain predictions of tool lives. In the models...... the number of forming cycles is calculated first to crack initiation and then during crack growth to fatal failure. An investigation of a critical die insert in an industrial cold-forging tool as regards the influence of notch radius, the amount and method of pre-stressing and the selected tool material...

  13. BUSINESS INTELLIGENCE TOOLS FOR DATA ANALYSIS AND DECISION MAKING

    Directory of Open Access Journals (Sweden)

    DEJAN ZDRAVESKI

    2011-04-01

    Full Text Available Every business is dynamic in nature and is affected by various external and internal factors. These factors include external market conditions, competitors, internal restructuring and re-alignment, operational optimization and paradigm shifts in the business itself. New regulations and restrictions, in combination with the above factors, contribute to the constant evolutionary nature of compelling, business-critical information; the kind of information that an organization needs to sustain and thrive. Business intelligence (“BI” is broad term that encapsulates the process of gathering information pertaining to a business and the market it functions in. This information when collated and analyzed in the right manner, can provide vital insights into the business and can be a tool to improve efficiency, reduce costs, reduce time lags and bring many positive changes. A business intelligence application helps to achieve precisely that. Successful organizations maximize the use of their data assets through business intelligence technology. The first data warehousing and decision support tools introduced companies to the power and benefits of accessing and analyzing their corporate data. Business users at every level found new, more sophisticated ways to analyze and report on the information mined from their vast data warehouses.Choosing a Business Intelligence offering is an important decision for an enterprise, one that will have a significant impact throughout the enterprise. The choice of a BI offering will affect people up and down the chain of command (senior management, analysts, and line managers and across functional areas (sales, finance, and operations. It will affect business users, application developers, and IT professionals. BI applications include the activities of decision support systems (DSS, query and reporting, online analyticalprocessing (OLAP, statistical analysis, forecasting, and data mining. Another way of phrasing this is

  14. Study of academic achievements using spatial analysis tools

    Science.gov (United States)

    González, C.; Velilla, C.; Sánchez-Girón, V.

    2012-04-01

    In the 2010/12 academic year the College of Agricultural Engineering of the Technical University of Madrid implemented three new degrees all of them adapted to the European Space for Higher Education. These degrees are namely: Graduate in Agricultural Engineering and Science, Graduate in Food Engineering and Graduate in Agro-Environmental Engineering. A total of 382 new incoming students were finally registered and a survey study was carried out with these students about their academic achievement with the aim of finding the level of dependence among the following variables: the final mark in their secondary studies, the option followed in the secondary studies (Art, Science and Technology, and Humanities and Social Sciences), the mark obtained in the entering examination to the university and in which of the two opportunities per year this examination takes place the latter mark was obtained. Similarly, another group of 77 students were evaluated independently to the former group. These students were those entering the College in the previous academic year (2009/10) and decided to change their curricula to the new ones. Subsequently, using the tools of spatial analysis of geographic information systems, we analyzed the possible relationship between the success or failure at school and the socioeconomic profile of new students in a grade. For this purpose every student was referenced assigning UTM coordinates to their postal addresses. Furthermore, all students' secondary schools were geographically coded considering their typology (public, private, and private subsidized) and fares. Each student was represented by its average geometric point in order to be correlated to their respective record. Following this procedure a map of the performance of each student could be drawn. This map can be used as a reference system, as it includes variables as the distance from the student home to the College, that can be used as a tool to calculate the probability of success or

  15. Seismic Canvas: Evolution as a Data Exploration and Analysis Tool

    Science.gov (United States)

    Kroeger, G. C.

    2015-12-01

    SeismicCanvas, originally developed as a prototype interactive waveform display and printing application for educational use has evolved to include significant data exploration and analysis functionality. The most recent version supports data import from a variety of standard file formats including SAC and mini-SEED, as well as search and download capabilities via IRIS/FDSN Web Services. Data processing tools now include removal of means and trends, interactive windowing, filtering, smoothing, tapering, resampling. Waveforms can be displayed in a free-form canvas or as a record section based on angular or great circle distance, azimuth or back azimuth. Integrated tau-p code allows the calculation and display of theoretical phase arrivals from a variety of radial Earth models. Waveforms can be aligned by absolute time, event time, picked or theoretical arrival times and can be stacked after alignment. Interactive measurements include means, amplitudes, time delays, ray parameters and apparent velocities. Interactive picking of an arbitrary list of seismic phases is supported. Bode plots of amplitude and phase spectra and spectrograms can be created from multiple seismograms or selected windows of seismograms. Direct printing is implemented on all supported platforms along with output of high-resolution pdf files. With these added capabilities, the application is now being used as a data exploration tool for research. Coded in C++ and using the cross-platform Qt framework, the most recent version is available as a 64-bit application for Windows 7-10, Mac OS X 10.6-10.11, and most distributions of Linux, and a 32-bit version for Windows XP and 7. With the latest improvements and refactoring of trace display classes, the 64-bit versions have been tested with over 250 million samples and remain responsive in interactive operations. The source code is available under a LPGLv3 license and both source and executables are available through the IRIS SeisCode repository.

  16. Analysis on machine tool systems using spindle vibration monitoring for automatic tool changer

    OpenAIRE

    Shang-Liang Chen; Yin-Ting Cheng; Chin-Fa Su

    2015-01-01

    Recently, the intelligent systems of technology have become one of the major items in the development of machine tools. One crucial technology is the machinery status monitoring function, which is required for abnormal warnings and the improvement of cutting efficiency. During processing, the mobility act of the spindle unit determines the most frequent and important part such as automatic tool changer. The vibration detection system includes the development of hardware and software, such as ...

  17. Quantifying Traces of Tool Use: A Novel Morphometric Analysis of Damage Patterns on Percussive Tools

    OpenAIRE

    Caruana, Matthew V.; Carvalho, Susana; Braun, David R.; Presnyakova, Darya; Haslam, Michael; Archer, Will; Bobe, Rene; Harris, John W. K.

    2014-01-01

    Percussive technology continues to play an increasingly important role in understanding the evolution of tool use. Comparing the archaeological record with extractive foraging behaviors in nonhuman primates has focused on percussive implements as a key to investigating the origins of lithic technology. Despite this, archaeological approaches towards percussive tools have been obscured by a lack of standardized methodologies. Central to this issue have been the use of qualitative, non-diagnost...

  18. Neutron activation analysis as analytical tool of environmental issue

    International Nuclear Information System (INIS)

    Otoshi, Tsunehiko

    2004-01-01

    Neutron activation analysis (NAA) ia applicable to the sample of wide range of research fields, such as material science, biology, geochemistry and so on. However, respecting the advantages of NAA, a sample with small amounts or a precious sample is the most suitable samples for NAA, because NAA is capable of trace analysis and non-destructive determination. In this paper, among these fields, NAA of atmospheric particulate matter (PM) sample is discussed emphasizing on the use of obtained data as an analytical tool of environmental issue. Concentration of PM in air is usually very low, and it is not easy to get vast amount of sample even using a high volume air sampling devise. Therefore, high sensitive NAA is suitable to determine elements in PM samples. Main components of PM is crust oriented silicate, and so on in rural/remote area, and carbonic materials and heavy metals are concentrated in PM in urban area, because of automobile exhaust and other anthropogenic emission source. Elemental pattern of PM reflects a condition of air around the monitoring site. Trends of air pollution can be traced by periodical monitoring of PM by NAA method. Elemental concentrations in air change by season. For example, crustal elements increase in dry season, and sea salts components increase their concentration when wind direction from sea is dominant. Elements that emitted from anthropogenic sources are mainly contained in fine portion of PM, and increase their concentration during winter season, when emission from heating system is high and air is stable. For further analysis and understanding of environmental issues, indicator elements for various emission sources, and elemental concentration ratios of some environmental samples and source portion assignment techniques are useful. (author)

  19. Flow injection analysis: Emerging tool for laboratory automation in radiochemistry

    International Nuclear Information System (INIS)

    Egorov, O.; Ruzicka, J.; Grate, J.W.; Janata, J.

    1996-01-01

    Automation of routine and serial assays is a common practice of modern analytical laboratory, while it is virtually nonexistent in the field of radiochemistry. Flow injection analysis (FIA) is a general solution handling methodology that has been extensively used for automation of routine assays in many areas of analytical chemistry. Reproducible automated solution handling and on-line separation capabilities are among several distinctive features that make FI a very promising, yet under utilized tool for automation in analytical radiochemistry. The potential of the technique is demonstrated through the development of an automated 90 Sr analyzer and its application in the analysis of tank waste samples from the Hanford site. Sequential injection (SI), the latest generation of FIA, is used to rapidly separate 90 Sr from interfering radionuclides and deliver separated Sr zone to a flow-through liquid scintillation detector. The separation is performed on a mini column containing Sr-specific sorbent extraction material, which selectively retains Sr under acidic conditions. The 90 Sr is eluted with water, mixed with scintillation cocktail, and sent through the flow cell of a flow through counter, where 90 Sr radioactivity is detected as a transient signal. Both peak area and peak height can be used for quantification of sample radioactivity. Alternatively, stopped flow detection can be performed to improve detection precision for low activity samples. The authors current research activities are focused on expansion of radiochemical applications of FIA methodology, with an ultimate goal of creating a set of automated methods that will cover the basic needs of radiochemical analysis at the Hanford site. The results of preliminary experiments indicate that FIA is a highly suitable technique for the automation of chemically more challenging separations, such as separation of actinide elements

  20. The use of current risk analysis tools evaluated towards preventing external domino accidents

    NARCIS (Netherlands)

    Reniers, Genserik L L; Dullaert, W.; Ale, B. J.M.; Soudan, K.

    Risk analysis is an essential tool for company safety policy. Risk analysis consists of identifying and evaluating all possible risks. The efficiency of risk analysis tools depends on the rigueur of identifying and evaluating all possible risks. The diversity in risk analysis procedures is such that

  1. Analysis of the influence of tool dynamics in diamond turning

    Energy Technology Data Exchange (ETDEWEB)

    Fawcett, S.C.; Luttrell, D.E.; Keltie, R.F.

    1988-12-01

    This report describes the progress in defining the role of machine and interface dynamics on the surface finish in diamond turning. It contains a review of literature from conventional and diamond machining processes relating tool dynamics, material interactions and tool wear to surface finish. Data from experimental measurements of tool/work piece interface dynamics are presented as well as machine dynamics for the DTM at the Center.

  2. Suspended Cell Culture ANalysis (SCAN) Tool to Enhance ISS On-Orbit Capabilities, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — Aurora Flight Sciences and partner, Draper Laboratory, propose to develop an on-orbit immuno-based label-free Suspension Cell Culture ANalysis tool, SCAN tool, which...

  3. GPFrontend and GPGraphics: graphical analysis tools for genetic association studies.

    Science.gov (United States)

    Uebe, Steffen; Pasutto, Francesca; Krumbiegel, Mandy; Schanze, Denny; Ekici, Arif B; Reis, André

    2010-09-21

    Most software packages for whole genome association studies are non-graphical, purely text based programs originally designed to run with UNIX-like operating systems. Graphical output is often not intended or supposed to be performed with other command line tools, e.g. gnuplot. Using the Microsoft .NET 2.0 platform and Visual Studio 2005, we have created a graphical software package to analyze data from microarray whole genome association studies, both for a DNA-pooling based approach as well as regular single sample data. Part of this package was made to integrate with GenePool 0.8.2, a previously existing software suite for GNU/Linux systems, which we have modified to run in a Microsoft Windows environment. Further modifications cause it to generate some additional data. This enables GenePool to interact with the .NET parts created by us. The programs we developed are GPFrontend, a graphical user interface and frontend to use GenePool and create metadata files for it, and GPGraphics, a program to further analyze and graphically evaluate output of different WGA analysis programs, among them also GenePool. Our programs enable regular MS Windows users without much experience in bioinformatics to easily visualize whole genome data from a variety of sources.

  4. GPFrontend and GPGraphics: graphical analysis tools for genetic association studies

    Directory of Open Access Journals (Sweden)

    Schanze Denny

    2010-09-01

    Full Text Available Abstract Background Most software packages for whole genome association studies are non-graphical, purely text based programs originally designed to run with UNIX-like operating systems. Graphical output is often not intended or supposed to be performed with other command line tools, e.g. gnuplot. Results Using the Microsoft .NET 2.0 platform and Visual Studio 2005, we have created a graphical software package to analyze data from microarray whole genome association studies, both for a DNA-pooling based approach as well as regular single sample data. Part of this package was made to integrate with GenePool 0.8.2, a previously existing software suite for GNU/Linux systems, which we have modified to run in a Microsoft Windows environment. Further modifications cause it to generate some additional data. This enables GenePool to interact with the .NET parts created by us. The programs we developed are GPFrontend, a graphical user interface and frontend to use GenePool and create metadata files for it, and GPGraphics, a program to further analyze and graphically evaluate output of different WGA analysis programs, among them also GenePool. Conclusions Our programs enable regular MS Windows users without much experience in bioinformatics to easily visualize whole genome data from a variety of sources.

  5. Thermal Management Tools for Propulsion System Trade Studies and Analysis

    Science.gov (United States)

    McCarthy, Kevin; Hodge, Ernie

    2011-01-01

    Energy-related subsystems in modern aircraft are more tightly coupled with less design margin. These subsystems include thermal management subsystems, vehicle electric power generation and distribution, aircraft engines, and flight control. Tighter coupling, lower design margins, and higher system complexity all make preliminary trade studies difficult. A suite of thermal management analysis tools has been developed to facilitate trade studies during preliminary design of air-vehicle propulsion systems. Simulink blocksets (from MathWorks) for developing quasi-steady-state and transient system models of aircraft thermal management systems and related energy systems have been developed. These blocksets extend the Simulink modeling environment in the thermal sciences and aircraft systems disciplines. The blocksets include blocks for modeling aircraft system heat loads, heat exchangers, pumps, reservoirs, fuel tanks, and other components at varying levels of model fidelity. The blocksets have been applied in a first-principles, physics-based modeling and simulation architecture for rapid prototyping of aircraft thermal management and related systems. They have been applied in representative modern aircraft thermal management system studies. The modeling and simulation architecture has also been used to conduct trade studies in a vehicle level model that incorporates coupling effects among the aircraft mission, engine cycle, fuel, and multi-phase heat-transfer materials.

  6. Improvements to Integrated Tradespace Analysis of Communications Architectures (ITACA) Network Loading Analysis Tool

    Science.gov (United States)

    Lee, Nathaniel; Welch, Bryan W.

    2018-01-01

    NASA's SCENIC project aims to simplify and reduce the cost of space mission planning by replicating the analysis capabilities of commercially licensed software which are integrated with relevant analysis parameters specific to SCaN assets and SCaN supported user missions. SCENIC differs from current tools that perform similar analyses in that it 1) does not require any licensing fees, 2) will provide an all-in-one package for various analysis capabilities that normally requires add-ons or multiple tools to complete. As part of SCENIC's capabilities, the ITACA network loading analysis tool will be responsible for assessing the loading on a given network architecture and generating a network service schedule. ITACA will allow users to evaluate the quality of service of a given network architecture and determine whether or not the architecture will satisfy the mission's requirements. ITACA is currently under development, and the following improvements were made during the fall of 2017: optimization of runtime, augmentation of network asset pre-service configuration time, augmentation of Brent's method of root finding, augmentation of network asset FOV restrictions, augmentation of mission lifetimes, and the integration of a SCaN link budget calculation tool. The improvements resulted in (a) 25% reduction in runtime, (b) more accurate contact window predictions when compared to STK(Registered Trademark) contact window predictions, and (c) increased fidelity through the use of specific SCaN asset parameters.

  7. Social dataset analysis and mapping tools for Risk Perception: resilience, people preparation and communication tools

    Science.gov (United States)

    Peters-Guarin, Graciela; Garcia, Carolina; Frigerio, Simone

    2010-05-01

    Perception has been identified as resource and part of the resilience of a community to disasters. Risk perception, if present, may determine the potential damage a household or community experience. Different levels of risk perception and preparedness can influence directly people's susceptibility and the way they might react in case of an emergency caused by natural hazards. In spite of the profuse literature about risk perception, works to spatially portray this feature are really scarce. The spatial relationship to danger or hazard is being recognised as an important factor of the risk equation; it can be used as a powerful tool either for better knowledge or for operational reasons (e.g. management of preventive information). Risk perception and people's awareness when displayed in a spatial format can be useful for several actors in the risk management arena. Local authorities and civil protection can better address educational activities to increase the preparation of particularly vulnerable groups of clusters of households within a community. It can also be useful for the emergency personal in order to optimally direct the actions in case of an emergency. In the framework of the Marie Curie Research Project, a Community Based Early Warning System (CBEWS) it's been developed in the Mountain Community Valtellina of Tirano, northern Italy. This community has been continuously exposed to different mass movements and floods, in particular, a large event in 1987 which affected a large portion of the valley and left 58 dead. The actual emergency plan for the study area is composed by a real time, highly detailed, decision support system. This emergency plan contains detailed instructions for the rapid deployment of civil protection and other emergency personal in case of emergency, for risk scenarios previously defined. Especially in case of a large event, where timely reaction is crucial for reducing casualties, it is important for those in charge of emergency

  8. Microfabricated tools for manipulation and analysis of magnetic microcarriers

    International Nuclear Information System (INIS)

    Tondra, Mark; Popple, Anthony; Jander, Albrecht; Millen, Rachel L.; Pekas, Nikola; Porter, Marc D.

    2005-01-01

    Tools for manipulating and detecting magnetic microcarriers are being developed with microscale features. Microfabricated giant magnetoresistive (GMR) sensors and wires are used for detection, and for creating high local field gradients. Microfluidic structures are added to control flow, and positioning of samples and microcarriers. These tools are designed for work in analytical chemistry and biology

  9. Computer Tools for Construction, Modification and Analysis of Petri Nets

    DEFF Research Database (Denmark)

    Jensen, Kurt

    1987-01-01

    The practical use of Petri nets is — just as any other description technique — very dependent on the existence of adequate computer tools, which may assist the user to cope with the many details of a large description. For Petri nets there is a need for tools supporting construction of nets...

  10. Principal Angle Enrichment Analysis (PAEA): Dimensionally Reduced Multivariate Gene Set Enrichment Analysis Tool.

    Science.gov (United States)

    Clark, Neil R; Szymkiewicz, Maciej; Wang, Zichen; Monteiro, Caroline D; Jones, Matthew R; Ma'ayan, Avi

    2015-11-01

    Gene set analysis of differential expression, which identifies collectively differentially expressed gene sets, has become an important tool for biology. The power of this approach lies in its reduction of the dimensionality of the statistical problem and its incorporation of biological interpretation by construction. Many approaches to gene set analysis have been proposed, but benchmarking their performance in the setting of real biological data is difficult due to the lack of a gold standard. In a previously published work we proposed a geometrical approach to differential expression which performed highly in benchmarking tests and compared well to the most popular methods of differential gene expression. As reported, this approach has a natural extension to gene set analysis which we call Principal Angle Enrichment Analysis (PAEA). PAEA employs dimensionality reduction and a multivariate approach for gene set enrichment analysis. However, the performance of this method has not been assessed nor its implementation as a web-based tool. Here we describe new benchmarking protocols for gene set analysis methods and find that PAEA performs highly. The PAEA method is implemented as a user-friendly web-based tool, which contains 70 gene set libraries and is freely available to the community.

  11. Tool wear analysis during duplex stainless steel trochoidal milling

    Science.gov (United States)

    Amaro, Paulo; Ferreira, Pedro; Simões, Fernando

    2018-05-01

    In this study a tool with interchangeable inserts of sintered carbides coated with AlTiN were used to mill a duplex stainless steel with trochoidal strategies. Cutting speed range from 120 to 300 m/min were used and t he evaluation of tool deterioration and tool life was made according international standard ISO 8688-1. It was observed a progressive development of a flank wear and a cumulative cyclic process of localized adhesion of the chip to the cutting edge, followed by chipping, loss of the coating and substrate exposure. The tool life reached a maximum of 35 min. for cutting speed of 120 m/min. However, it was possible to maintain a tool life of 20-25 minutes when the cutting speed was increased up to 240 m/min.

  12. SNP_tools: A compact tool package for analysis and conversion of genotype data for MS-Excel.

    Science.gov (United States)

    Chen, Bowang; Wilkening, Stefan; Drechsel, Marion; Hemminki, Kari

    2009-10-23

    Single nucleotide polymorphism (SNP) genotyping is a major activity in biomedical research. Scientists prefer to have a facile access to the results which may require conversions between data formats. First hand SNP data is often entered in or saved in the MS-Excel format, but this software lacks genetic and epidemiological related functions. A general tool to do basic genetic and epidemiological analysis and data conversion for MS-Excel is needed. The SNP_tools package is prepared as an add-in for MS-Excel. The code is written in Visual Basic for Application, embedded in the Microsoft Office package. This add-in is an easy to use tool for users with basic computer knowledge (and requirements for basic statistical analysis). Our implementation for Microsoft Excel 2000-2007 in Microsoft Windows 2000, XP, Vista and Windows 7 beta can handle files in different formats and converts them into other formats. It is a free software.

  13. Dual-use tools and systematics-aware analysis workflows in the ATLAS Run-II analysis model

    CERN Document Server

    FARRELL, Steven; The ATLAS collaboration

    2015-01-01

    The ATLAS analysis model has been overhauled for the upcoming run of data collection in 2015 at 13 TeV. One key component of this upgrade was the Event Data Model (EDM), which now allows for greater flexibility in the choice of analysis software framework and provides powerful new features that can be exploited by analysis software tools. A second key component of the upgrade is the introduction of a dual-use tool technology, which provides abstract interfaces for analysis software tools to run in either the Athena framework or a ROOT-based framework. The tool interfaces, including a new interface for handling systematic uncertainties, have been standardized for the development of improved analysis workflows and consolidation of high-level analysis tools. This presentation will cover the details of the dual-use tool functionality, the systematics interface, and how these features fit into a centrally supported analysis environment.

  14. Dual-use tools and systematics-aware analysis workflows in the ATLAS Run-2 analysis model

    CERN Document Server

    FARRELL, Steven; The ATLAS collaboration; Calafiura, Paolo; Delsart, Pierre-Antoine; Elsing, Markus; Koeneke, Karsten; Krasznahorkay, Attila; Krumnack, Nils; Lancon, Eric; Lavrijsen, Wim; Laycock, Paul; Lei, Xiaowen; Strandberg, Sara Kristina; Verkerke, Wouter; Vivarelli, Iacopo; Woudstra, Martin

    2015-01-01

    The ATLAS analysis model has been overhauled for the upcoming run of data collection in 2015 at 13 TeV. One key component of this upgrade was the Event Data Model (EDM), which now allows for greater flexibility in the choice of analysis software framework and provides powerful new features that can be exploited by analysis software tools. A second key component of the upgrade is the introduction of a dual-use tool technology, which provides abstract interfaces for analysis software tools to run in either the Athena framework or a ROOT-based framework. The tool interfaces, including a new interface for handling systematic uncertainties, have been standardized for the development of improved analysis workflows and consolidation of high-level analysis tools. This paper will cover the details of the dual-use tool functionality, the systematics interface, and how these features fit into a centrally supported analysis environment.

  15. Online Analysis of Wind and Solar Part I: Ramping Tool

    Energy Technology Data Exchange (ETDEWEB)

    Etingov, Pavel V.; Ma, Jian; Makarov, Yuri V.; Subbarao, Krishnappa

    2012-01-31

    To facilitate wider penetration of renewable resources without compromising system reliability concerns arising from the lack of predictability of intermittent renewable resources, a tool for use by California Independent System Operator (CAISO) power grid operators was developed by Pacific Northwest National Laboratory (PNNL) in conjunction with CAISO with funding from California Energy Commission. This tool predicts and displays additional capacity and ramping requirements caused by uncertainties in forecasts of loads and renewable generation. The tool is currently operational in the CAISO operations center. This is one of two final reports on the project.

  16. Bioinformatics Database Tools in Analysis of Genetics of Neurodevelopmental Disorders

    Directory of Open Access Journals (Sweden)

    Dibyashree Mallik

    2017-10-01

    Full Text Available Bioinformatics tools are recently used in various sectors of biology. Many questions regarding Neurodevelopmental disorder which arises as a major health issue recently can be solved by using various bioinformatics databases. Schizophrenia is such a mental disorder which is now arises as a major threat in young age people because it is mostly seen in case of people during their late adolescence or early adulthood period. Databases like DISGENET, GWAS, PHARMGKB, and DRUGBANK have huge repository of genes associated with schizophrenia. We found a lot of genes are being associated with schizophrenia, but approximately 200 genes are found to be present in any of these databases. After further screening out process 20 genes are found to be highly associated with each other and are also a common genes in many other diseases also. It is also found that they all are serves as a common targeting gene in many antipsychotic drugs. After analysis of various biological properties, molecular function it is found that these 20 genes are mostly involved in biological regulation process and are having receptor activity. They are belonging mainly to receptor protein class. Among these 20 genes CYP2C9, CYP3A4, DRD2, HTR1A, HTR2A are shown to be a main targeting genes of most of the antipsychotic drugs and are associated with  more than 40% diseases. The basic findings of the present study enumerated that a suitable combined drug can be design by targeting these genes which can be used for the better treatment of schizophrenia.

  17. AnalyzeHOLE: An Integrated Wellbore Flow Analysis Tool

    Energy Technology Data Exchange (ETDEWEB)

    Keith J. Halford

    2009-10-01

    Conventional interpretation of flow logs assumes that hydraulic conductivity is directly proportional to flow change with depth. However, well construction can significantly alter the expected relation between changes in fluid velocity and hydraulic conductivity. Strong hydraulic conductivity contrasts between lithologic intervals can be masked in continuously screened wells. Alternating intervals of screen and blank casing also can greatly complicate the relation between flow and hydraulic properties. More permeable units are not necessarily associated with rapid fluid-velocity increases. Thin, highly permeable units can be misinterpreted as thick and less permeable intervals or not identified at all. These conditions compromise standard flow-log interpretation because vertical flow fields are induced near the wellbore. AnalyzeHOLE, an integrated wellbore analysis tool for simulating flow and transport in wells and aquifer systems, provides a better alternative for simulating and evaluating complex well-aquifer system interaction. A pumping well and adjacent aquifer system are simulated with an axisymmetric, radial geometry in a two-dimensional MODFLOW model. Hydraulic conductivities are distributed by depth and estimated with PEST by minimizing squared differences between simulated and measured flows and drawdowns. Hydraulic conductivity can vary within a lithology but variance is limited with regularization. Transmissivity of the simulated system also can be constrained to estimates from single-well, pumping tests. Water-quality changes in the pumping well are simulated with simple mixing models between zones of differing water quality. These zones are differentiated by backtracking thousands of particles from the well screens with MODPATH. An Excel spreadsheet is used to interface the various components of AnalyzeHOLE by (1) creating model input files, (2) executing MODFLOW, MODPATH, PEST, and supporting FORTRAN routines, and (3) importing and graphically

  18. MTpy - Python Tools for Magnetotelluric Data Processing and Analysis

    Science.gov (United States)

    Krieger, Lars; Peacock, Jared; Thiel, Stephan; Inverarity, Kent; Kirkby, Alison; Robertson, Kate; Soeffky, Paul; Didana, Yohannes

    2014-05-01

    We present the Python package MTpy, which provides functions for the processing, analysis, and handling of magnetotelluric (MT) data sets. MT is a relatively immature and not widely applied geophysical method in comparison to other geophysical techniques such as seismology. As a result, the data processing within the academic MT community is not thoroughly standardised and is often based on a loose collection of software, adapted to the respective local specifications. We have developed MTpy to overcome problems that arise from missing standards, and to provide a simplification of the general handling of MT data. MTpy is written in Python, and the open-source code is freely available from a GitHub repository. The setup follows the modular approach of successful geoscience software packages such as GMT or Obspy. It contains sub-packages and modules for the various tasks within the standard work-flow of MT data processing and interpretation. In order to allow the inclusion of already existing and well established software, MTpy does not only provide pure Python classes and functions, but also wrapping command-line scripts to run standalone tools, e.g. modelling and inversion codes. Our aim is to provide a flexible framework, which is open for future dynamic extensions. MTpy has the potential to promote the standardisation of processing procedures and at same time be a versatile supplement for existing algorithms. Here, we introduce the concept and structure of MTpy, and we illustrate the workflow of MT data processing, interpretation, and visualisation utilising MTpy on example data sets collected over different regions of Australia and the USA.

  19. Applications of a broad-spectrum tool for conservation and fisheries analysis: aquatic gap analysis

    Science.gov (United States)

    McKenna, James E.; Steen, Paul J.; Lyons, John; Stewart, Jana S.

    2009-01-01

    Natural resources support all of our social and economic activities, as well as our biological existence. Humans have little control over most of the physical, biological, and sociological conditions dictating the status and capacity of natural resources in any particular area. However, the most rapid and threatening influences on natural resources typically are anthropogenic overuse and degradation. In addition, living natural resources (i.e., organisms) do not respect political boundaries, but are aware of their optimal habitat and environmental conditions. Most organisms have wider spatial ranges than the jurisdictional boundaries of environmental agencies that deal with them; even within those jurisdictions, information is patchy and disconnected. Planning and projecting effects of ecological management are difficult, because many organisms, habitat conditions, and interactions are involved. Conservation and responsible resource use involves wise management and manipulation of the aspects of the environment and biological communities that can be effectively changed. Tools and data sets that provide new insights and analysis capabilities can enhance the ability of resource managers to make wise decisions and plan effective, long-term management strategies. Aquatic gap analysis has been developed to provide those benefits. Gap analysis is more than just the assessment of the match or mis-match (i.e., gaps) between habitats of ecological value and areas with an appropriate level of environmental protection (e.g., refuges, parks, preserves), as the name suggests. Rather, a Gap Analysis project is a process which leads to an organized database of georeferenced information and previously available tools to examine conservation and other ecological issues; it provides a geographic analysis platform that serves as a foundation for aquatic ecological studies. This analytical tool box allows one to conduct assessments of all habitat elements within an area of interest

  20. Evaluation of static analysis tools used to assess software important to nuclear power plant safety

    Energy Technology Data Exchange (ETDEWEB)

    Ourghanlian, Alain [EDF Lab CHATOU, Simulation and Information Technologies for Power Generation Systems Department, EDF R and D, Cedex (France)

    2015-03-15

    We describe a comparative analysis of different tools used to assess safety-critical software used in nuclear power plants. To enhance the credibility of safety assessments and to optimize safety justification costs, Electricit e de France (EDF) investigates the use of methods and tools for source code semantic analysis, to obtain indisputable evidence and help assessors focus on the most critical issues. EDF has been using the PolySpace tool for more than 10 years. Currently, new industrial tools based on the same formal approach, Abstract Interpretation, are available. Practical experimentation with these new tools shows that the precision obtained on one of our shutdown systems software packages is substantially improved. In the first part of this article, we present the analysis principles of the tools used in our experimentation. In the second part, we present the main characteristics of protection-system software, and why these characteristics are well adapted for the new analysis tools.

  1. comparative analysis of diagnostic applications of autoscan tools

    African Journals Online (AJOL)

    user

    A structured questionnaire with 3 items questions as checklist, 2 Auto scan tools were used for the study and test carried out on 5 vehicle systems at the 3 centers where Innova ... maintenance, auto- analyzers, solid work design and can-.

  2. Technology Combination Analysis Tool (TCAT) for Active Debris Removal

    Science.gov (United States)

    Chamot, B.; Richard, M.; Salmon, T.; Pisseloup, A.; Cougnet, C.; Axthelm, R.; Saunder, C.; Dupont, C.; Lequette, L.

    2013-08-01

    This paper present the work of the Swiss Space Center EPFL within the CNES-funded OTV-2 study. In order to find the most performant Active Debris Removal (ADR) mission architectures and technologies, a tool was developed in order to design and compare ADR spacecraft, and to plan ADR campaigns to remove large debris. Two types of architectures are considered to be efficient: the Chaser (single-debris spacecraft), the Mothership/ Kits (multiple-debris spacecraft). Both are able to perform controlled re-entry. The tool includes modules to optimise the launch dates and the order of capture, to design missions and spacecraft, and to select launch vehicles. The propulsion, power and structure subsystems are sized by the tool thanks to high-level parametric models whilst the other ones are defined by their mass and power consumption. Final results are still under investigation by the consortium but two concrete examples of the tool's outputs are presented in the paper.

  3. Assessing the Possibility of Implementing Tools of Technical Analysys for Real Estate Market Analysis

    Directory of Open Access Journals (Sweden)

    Brzezicka Justyna

    2016-06-01

    Full Text Available Technical analysis (TA and its different aspects are widely used to study the capital market. In the traditional approach, this analysis is used to determine the probability of changes in current rates on the basis of their past changes, accounting for factors which had, have or may have an influence on shaping the supply and demand of a given asset. In the practical sense, TA is a set of techniques used for assessing the value of an asset based on the analysis of the asset's trajectories as well as statistical tools.

  4. Analysis of Marketing Mix Tools in a Chosen Company

    OpenAIRE

    Dvořáková, Vendula

    2009-01-01

    The complex structure of the marketing mix of the Velteko s.r.o. company is analysed in my work. Characterising of the concern, basic analysing of the individual tools of the marketing mix and clients survey evaluating is the main object. Conclusion is focused on the rating of the level and the efficiency of the utilization of the used tools. Relevant recommendations are added.

  5. Overview of the Hydrogen Financial Analysis Scenario Tool (H2FAST); NREL (National Renewable Energy Laboratory)

    Energy Technology Data Exchange (ETDEWEB)

    Melaina, Marc; Bush, Brian; Penev, Michael

    2015-05-12

    This presentation provides an introduction to the Hydrogen Financial Analysis Scenario Tool (H2FAST) and includes an overview of each of the three versions of H2FAST: the Web tool, the Excel spreadsheet version, and the beta version of the H2FAST Business Case Scenario tool.

  6. Hydrogen Financial Analysis Scenario Tool (H2FAST); NREL (National Renewable Energy Laboratory)

    Energy Technology Data Exchange (ETDEWEB)

    Melaina, Marc

    2015-04-21

    This presentation describes the Hydrogen Financial Analysis Scenario Tool, H2FAST, and provides an overview of each of the three H2FAST formats: the H2FAST web tool, the H2FAST Excel spreadsheet, and the H2FAST Business Case Scenario (BCS) tool. Examples are presented to illustrate the types of questions that H2FAST can help answer.

  7. Photomat: A Mobile Tool for Aiding in Student Construction of Research Questions and Data Analysis

    Science.gov (United States)

    Shelley, Tia Renee; Dasgupta, Chandan; Silva, Alexandra; Lyons, Leilah; Moher, Tom

    2015-01-01

    This paper presents a new mobile software tool, PhotoMAT (Photo Management and Analysis Tool), and students' experiences with this tool within a scaffolded curricular unit--Neighborhood Safari. PhotoMAT was designed to support learners' investigations of backyard animal behavior and works with image sets obtained using fixed-position field cameras…

  8. Modal Analysis and Experimental Determination of Optimum Tool Shank Overhang of a Lathe Machine

    Directory of Open Access Journals (Sweden)

    Nabin SARDAR

    2008-12-01

    Full Text Available Vibration of Tool Shank of a cutting tool has large influence on tolerances and surface finish of products. Frequency and amplitude of vibrations depend on the overhang of the shank of the cutting tool. In turning operations, when the tool overhang is about 2 times of the tool height, the amplitude of the vibration is almost zero and dimensional tolerances and surface finish of the product becomes high. In this paper, the above statement is verified firstly by using a finite element analysis of the cutting tool with ANSYS software package and secondly, with experimental verification with a piezoelectric sensor.

  9. Risk analysis for dengue suitability in Africa using the ArcGIS predictive analysis tools (PA tools).

    Science.gov (United States)

    Attaway, David F; Jacobsen, Kathryn H; Falconer, Allan; Manca, Germana; Waters, Nigel M

    2016-06-01

    Risk maps identifying suitable locations for infection transmission are important for public health planning. Data on dengue infection rates are not readily available in most places where the disease is known to occur. A newly available add-in to Esri's ArcGIS software package, the ArcGIS Predictive Analysis Toolset (PA Tools), was used to identify locations within Africa with environmental characteristics likely to be suitable for transmission of dengue virus. A more accurate, robust, and localized (1 km × 1 km) dengue risk map for Africa was created based on bioclimatic layers, elevation data, high-resolution population data, and other environmental factors that a search of the peer-reviewed literature showed to be associated with dengue risk. Variables related to temperature, precipitation, elevation, and population density were identified as good predictors of dengue suitability. Areas of high dengue suitability occur primarily within West Africa and parts of Central Africa and East Africa, but even in these regions the suitability is not homogenous. This risk mapping technique for an infection transmitted by Aedes mosquitoes draws on entomological, epidemiological, and geographic data. The method could be applied to other infectious diseases (such as Zika) in order to provide new insights for public health officials and others making decisions about where to increase disease surveillance activities and implement infection prevention and control efforts. The ability to map threats to human and animal health is important for tracking vectorborne and other emerging infectious diseases and modeling the likely impacts of climate change. Copyright © 2016 Elsevier B.V. All rights reserved.

  10. Teaching Advanced Data Analysis Tools to High School Astronomy Students

    Science.gov (United States)

    Black, David V.; Herring, Julie; Hintz, Eric G.

    2015-01-01

    A major barrier to becoming an astronomer is learning how to analyze astronomical data, such as using photometry to compare the brightness of stars. Most fledgling astronomers learn observation, data reduction, and analysis skills through an upper division college class. If the same skills could be taught in an introductory high school astronomy class, then more students would have an opportunity to do authentic science earlier, with implications for how many choose to become astronomers. Several software tools have been developed that can analyze astronomical data ranging from fairly straightforward (AstroImageJ and DS9) to very complex (IRAF and DAOphot). During the summer of 2014, a study was undertaken at Brigham Young University through a Research Experience for Teachers (RET) program to evaluate the effectiveness and ease-of-use of these four software packages. Standard tasks tested included creating a false-color IR image using WISE data in DS9, Adobe Photoshop, and The Gimp; a multi-aperture analyses of variable stars over time using AstroImageJ; creating Spectral Energy Distributions (SEDs) of stars using photometry at multiple wavelengths in AstroImageJ and DS9; and color-magnitude and hydrogen alpha index diagrams for open star clusters using IRAF and DAOphot. Tutorials were then written and combined with screen captures to teach high school astronomy students at Walden School of Liberal Arts in Provo, UT how to perform these same tasks. They analyzed image data using the four software packages, imported it into Microsoft Excel, and created charts using images from BYU's 36-inch telescope at their West Mountain Observatory. The students' attempts to complete these tasks were observed, mentoring was provided, and the students then reported on their experience through a self-reflection essay and concept test. Results indicate that high school astronomy students can successfully complete professional-level astronomy data analyses when given detailed

  11. Analysis on machine tool systems using spindle vibration monitoring for automatic tool changer

    Directory of Open Access Journals (Sweden)

    Shang-Liang Chen

    2015-12-01

    Full Text Available Recently, the intelligent systems of technology have become one of the major items in the development of machine tools. One crucial technology is the machinery status monitoring function, which is required for abnormal warnings and the improvement of cutting efficiency. During processing, the mobility act of the spindle unit determines the most frequent and important part such as automatic tool changer. The vibration detection system includes the development of hardware and software, such as vibration meter, signal acquisition card, data processing platform, and machine control program. Meanwhile, based on the difference between the mechanical configuration and the desired characteristics, it is difficult for a vibration detection system to directly choose the commercially available kits. For this reason, it was also selected as an item for self-development research, along with the exploration of a significant parametric study that is sufficient to represent the machine characteristics and states. However, we also launched the development of functional parts of the system simultaneously. Finally, we entered the conditions and the parameters generated from both the states and the characteristics into the developed system to verify its feasibility.

  12. MSP-Tool: a VBA-based software tool for the analysis of multispecimen paleointensity data

    Science.gov (United States)

    Monster, Marilyn; de Groot, Lennart; Dekkers, Mark

    2015-12-01

    The multispecimen protocol (MSP) is a method to estimate the Earth's magnetic field's past strength from volcanic rocks or archeological materials. By reducing the amount of heating steps and aligning the specimens parallel to the applied field, thermochemical alteration and multi-domain effects are minimized. We present a new software tool, written for Microsoft Excel 2010 in Visual Basic for Applications (VBA), that evaluates paleointensity data acquired using this protocol. In addition to the three ratios (standard, fraction-corrected and domain-state-corrected) calculated following Dekkers and Böhnel (2006) and Fabian and Leonhardt (2010) and a number of other parameters proposed by Fabian and Leonhardt (2010), it also provides several reliability criteria. These include an alteration criterion, whether or not the linear regression intersects the y axis within the theoretically prescribed range, and two directional checks. Overprints and misalignment are detected by isolating the remaining natural remanent magnetization (NRM) and the partial thermoremanent magnetization (pTRM) gained and comparing their declinations and inclinations. The NRM remaining and pTRM gained are then used to calculate alignment-corrected multispecimen plots. Data are analyzed using bootstrap statistics. The program was tested on lava samples that were given a full TRM and that acquired their pTRMs at angles of 0, 15, 30 and 90° with respect to their NRMs. MSP-Tool adequately detected and largely corrected these artificial alignment errors.

  13. Analysis of the Requirements Generation Process for the Logistics Analysis and Wargame Support Tool

    Science.gov (United States)

    2017-06-01

    impact everything from strategic logistic operations down to the energy demands at the company level. It also looks at the force structure of the...this requirement. 34. The system shall determine the efficiency of the logistics network with respect to an estimated cost of fuel used to deliver...REQUIREMENTS GENERATION PROCESS FOR THE LOGISTICS ANALYSIS AND WARGAME SUPPORT TOOL by Jonathan M. Swan June 2017 Thesis Advisor

  14. “DRYPACK” - a calculation and analysis tool

    DEFF Research Database (Denmark)

    Andreasen, M.B.; Toftegaard, R.; Schneider, P.

    2013-01-01

    drying processes. Moreover, it is possible to change the configuration of the dryer by including/changing energy saving components to illustrate the potential of the new configuration. The calculation tool is demonstrated in four different case studies, where the actual energy consumption and possible......“DryPack” is a calculation tool that visualises the energy consumption of airbased and superheated steam drying processes. With “DryPack”, it is possible to add different components to a simple drying process, and thereby increase the flexibility, which makes it possible to analyse the most common...... energy consumption reductions by using “DryPack” are calculated. With the “DryPack” calculation tool, it is possible to calculate four different unit operations with moist air (dehumidification of air, humidification of air, mixing of two air streams, and heating of air). In addition, a Mollier diagram...

  15. Comparative analysis of deterministic and probabilistic fracture mechanical assessment tools

    Energy Technology Data Exchange (ETDEWEB)

    Heckmann, Klaus [Gesellschaft fuer Anlagen- und Reaktorsicherheit (GRS) gGmbH, Koeln (Germany); Saifi, Qais [VTT Technical Research Centre of Finland, Espoo (Finland)

    2016-11-15

    Uncertainties in material properties, manufacturing processes, loading conditions and damage mechanisms complicate the quantification of structural reliability. Probabilistic structure mechanical computing codes serve as tools for assessing leak- and break probabilities of nuclear piping components. Probabilistic fracture mechanical tools were compared in different benchmark activities, usually revealing minor, but systematic discrepancies between results of different codes. In this joint paper, probabilistic fracture mechanical codes are compared. Crack initiation, crack growth and the influence of in-service inspections are analyzed. Example cases for stress corrosion cracking and fatigue in LWR conditions are analyzed. The evolution of annual failure probabilities during simulated operation time is investigated, in order to identify the reasons for differences in the results of different codes. The comparison of the tools is used for further improvements of the codes applied by the partners.

  16. Lagrangian analysis. Modern tool of the dynamics of solids

    Science.gov (United States)

    Cagnoux, J.; Chartagnac, P.; Hereil, P.; Perez, M.; Seaman, L.

    Explosive metal-working, material synthesis under shock loading, terminal ballistics, and explosive rock-blasting, are some of the civil and military fields of activity that call for a wider knowledge about the behavior of materials subjected to strong dynamic pressures. It is in these fields that Lagrangian analysis methods, the subject of this work, prove to be a useful investigative tool for the physicist. Lagrangian analysis was developed around 1970 by Fowles and Williams. The idea is based on the integration of the conservation equations of mechanics using stress or particle velocity records obtained by means of transducers placed in the path of a stress wave. In this way, all the kinematical and mechanical quantities contained in the conservation equations are obtained. In the first chapter the authors introduce the mathematical tools used to analyze plane and spherical one-dimensional motions. For plane motion, they describe the mathematical analysis methods pertinent to the three regimes of wave propagation encountered : the non-attenuating unsteady wave, the simple wave, and the attenuating unsteady wave. In each of these regimes, cases are treated for which either stress or particle velocity records are initially available. The authors insist that one or the other groups of data (stress and particle velocity) are sufficient to integrate the conservation equations in the case of the plane motion when both groups of data are necessary in the case of the spherical motion. However, in spite of this additional difficulty, Lagrangian analysis of the spherical motion remains particularly interesting for the physicist because it allows access to the behavior of the material under deformation processes other than that imposed by plane one-dimensional motion. The methods expounded in the first chapter are based on Lagrangian measurement of particle velocity and stress in relation to time in a material compressed by a plane or spherical dilatational wave. The

  17. Fractography analysis of tool samples used for cold forging

    DEFF Research Database (Denmark)

    Dahl, K.V.

    2002-01-01

    Three fractured tool dies used for industrial cold forging have been investigated using light optical microscopy and scanning electron microscopy. Two of the specimens were produced using the traditional Böhler P/M steel grade s790, while the lastspecimen was a third generation P/M steel produced...... using new technology developed by Böhler. All three steels have the same nominal composition of alloying elements. The failure in both types of material occurs as a crack formation at a notch inside ofthe tool. Generally the cold forging dies constructed in third generation steels have a longer lifetime...

  18. Enabling Collaborative Analysis: State Evaluation Groups, the Electronic State File, and Collaborative Analysis Tools

    International Nuclear Information System (INIS)

    Eldridge, C.; Gagne, D.; Wilson, B.; Murray, J.; Gazze, C.; Feldman, Y.; Rorif, F.

    2015-01-01

    The timely collection and analysis of all safeguards relevant information is the key to drawing and maintaining soundly-based safeguards conclusions. In this regard, the IAEA has made multidisciplinary State Evaluation Groups (SEGs) central to this process. To date, SEGs have been established for all States and tasked with developing State-level approaches (including the identification of technical objectives), drafting annual implementation plans specifying the field and headquarters activities necessary to meet technical objectives, updating the State evaluation on an ongoing basis to incorporate new information, preparing an annual evaluation summary, and recommending a safeguards conclusion to IAEA senior management. To accomplish these tasks, SEGs need to be staffed with relevant expertise and empowered with tools that allow for collaborative access to, and analysis of, disparate information sets. To ensure SEGs have the requisite expertise, members are drawn from across the Department of Safeguards based on their knowledge of relevant data sets (e.g., nuclear material accountancy, material balance evaluation, environmental sampling, satellite imagery, open source information, etc.) or their relevant technical (e.g., fuel cycle) expertise. SEG members also require access to all available safeguards relevant data on the State. To facilitate this, the IAEA is also developing a common, secure platform where all safeguards information can be electronically stored and made available for analysis (an electronic State file). The structure of this SharePoint-based system supports IAEA information collection processes, enables collaborative analysis by SEGs, and provides for management insight and review. In addition to this common platform, the Agency is developing, deploying, and/or testing sophisticated data analysis tools that can synthesize information from diverse information sources, analyze diverse datasets from multiple viewpoints (e.g., temporal, geospatial

  19. Interactive tool that empowers structural understanding and enables FEM analysis in a parametric design environment

    DEFF Research Database (Denmark)

    Christensen, Jesper Thøger; Parigi, Dario; Kirkegaard, Poul Henning

    2014-01-01

    This paper introduces an interactive tool developed to integrate structural analysis in the architectural design environment from the early conceptual design stage. The tool improves exchange of data between the design environment of Rhino Grasshopper and the FEM analysis of Autodesk Robot...... Structural Analysis. Further the tool provides intuitive setup and visual aids in order to facilitate the process. Enabling students and professionals to quickly analyze and evaluate multiple design variations. The tool has been developed inside the Performance Aided Design course at the Master...... of Architecture and Design at Aalborg University...

  20. Tools-4-Metatool (T4M): online suite of web-tools to process stoichiometric network analysis data from Metatool.

    Science.gov (United States)

    Xavier, Daniela; Vázquez, Sara; Higuera, Clara; Morán, Federico; Montero, Francisco

    2011-08-01

    Tools-4-Metatool (T4M) is a suite of web-tools, implemented in PERL, which analyses, parses, and manipulates files related to Metatool. Its main goal is to assist the work with Metatool. T4M has two major sets of tools: Analysis and Compare. Analysis visualizes the results of Metatool (convex basis, elementary flux modes, and enzyme subsets) and facilitates the study of metabolic networks. It is composed of five tools: MDigraph, MetaMatrix, CBGraph, EMGraph, and SortEM. Compare was developed to compare different Metatool results from different networks. This set consists of: Compara and ComparaSub which compare network subsets providing outputs in different formats and ComparaEM that seeks for identical elementary modes in two metabolic networks. The suite T4M also includes one script that generates Metatool input: CBasis2Metatool, based on a Metatool output file that is filtered by a list of convex basis' metabolites. Finally, the utility CheckMIn checks the consistency of the Metatool input file. T4M is available at http://solea.quim.ucm.es/t4m. Copyright © 2011 Elsevier Ireland Ltd. All rights reserved.

  1. Comprehensive Analysis of Semantic Web Reasoners and Tools: A Survey

    Science.gov (United States)

    Khamparia, Aditya; Pandey, Babita

    2017-01-01

    Ontologies are emerging as best representation techniques for knowledge based context domains. The continuing need for interoperation, collaboration and effective information retrieval has lead to the creation of semantic web with the help of tools and reasoners which manages personalized information. The future of semantic web lies in an ontology…

  2. Simplified Analysis Tool for Ship-Ship Collision

    DEFF Research Database (Denmark)

    Yamada, Yasuhira; Pedersen, Preben Terndrup

    2007-01-01

    to the collision scenario thatwhere a VLCC in ballast condition collides perpendicularly with the mid part of another D/H VLCC in fully loaded condition. The results obtained from the present tool are compared with those obtained by large scale FEA, and fairy good agreements are achieved. The applicability...

  3. Stream analysis, a practical tool for innovators and change agents

    NARCIS (Netherlands)

    Kastelein, A.

    1993-01-01

    To survive organizations have to innovate and to change. Fundamental questions are: * Which strategies and tools could be applied succesfully in the everchanging environment? * Are the identified instruments effective iri our business? * Do we need professional support? In more than a dozen projects

  4. Hygrothermal Simulation: A Tool for Building Envelope Design Analysis

    Science.gov (United States)

    Samuel V. Glass; Anton TenWolde; Samuel L. Zelinka

    2013-01-01

    Is it possible to gauge the risk of moisture problems while designing the building envelope? This article provides a brief introduction to computer-based hygrothermal (heat and moisture) simulation, shows how simulation can be useful as a design tool, and points out a number of im-portant considerations regarding model inputs and limita-tions. Hygrothermal simulation...

  5. Stability analysis of multipoint tool equipped with metal cutting ceramics

    Science.gov (United States)

    Maksarov, V. V.; Khalimonenko, A. D.; Matrenichev, K. G.

    2017-10-01

    The article highlights the issues of determining the stability of the cutting process by a multipoint cutting tool equipped with cutting ceramics. There were some recommendations offered on the choice of parameters of replaceable cutting ceramic plates for milling based of the conducted researches. Ceramic plates for milling are proposed to be selected on the basis of value of their electrical volume resistivity.

  6. NREL Suite of Tools for PV and Storage Analysis

    Energy Technology Data Exchange (ETDEWEB)

    Elgqvist, Emma M [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Salasovich, James A [National Renewable Energy Laboratory (NREL), Golden, CO (United States)

    2018-04-03

    Many different factors such as the solar resource, technology costs and incentives, utility cost and consumption, space available, and financial parameters impact the technical and economic potential of a PV project. NREL has developed techno-economic modeling tools that can be used to evaluate PV projects at a site.

  7. Analysis of Online Quizzes as a Teaching and Assessment Tool

    Science.gov (United States)

    Salas-Morera, Lorenzo; Arauzo-Azofra, Antonio; García-Hernández, Laura

    2012-01-01

    This article deals with the integrated use of online quizzes as a teaching and assessment tool in the general program of the subject Proyectos in the third course of Ingeniero Técnico en Informática de Gestión over five consecutive years. The research undertaken aimed to test quizzes effectiveness on student performance when used, not only as an…

  8. Optimization and Analysis of Cutting Tool Geometrical Parameters ...

    African Journals Online (AJOL)

    ADOWIE PERE

    Bassett et al.,(2012);. Kountanya et al., (2016) studied the effect of tool edge geometry and cutting conditions on the chip morphology in orthogonal hard turning of 100Cr6 steel. Their study shows that the edge radius does not influence the geometrical parameters of the chip. Moreover cutting forces decreases as the cutting.

  9. Simulation Tools for Forest Health Analysis: An Application in the Red River Watershed, Idaho

    Science.gov (United States)

    Andrew J. McMahan; Eric L. Smith

    2006-01-01

    Software tools for landscape analyses--including FVS model extensions, and a number of FVS-related pre- and post-processing “tools”--are presented, using an analysis in the Red River Watershed, Nez Perce National Forest as an example. We present (1) a discussion of pre-simulation data analysis; (2) the Physiographic Information Extraction System (PIES), a tool that can...

  10. Stakeholder Analysis of an Executable Achitecture Systems Engineering (EASE) Tool

    Science.gov (United States)

    2013-06-21

    The FCR tables and stakeholder feedback are then used as the foundation of a Strengths, Weaknesses, Opportunities, and Threats ( SWOT ) analysis . Finally...the SWOT analysis and stakeholder feedback arc translated into an EASE future development strategy; a series of recommendations regarding...and Threats ( SWOT ) analysis . Finally, the SWOT analysis and stakeholder feedback are translated into an EASE future development strategy; a series

  11. Situational Awareness Analysis Tools for Aiding Discovery of Security Events and Patterns

    National Research Council Canada - National Science Library

    Kumar, Vipin; Kim, Yongdae; Srivastava, Jaideep; Zhang, Zhi-Li; Shaneck, Mark; Chandola, Varun; Liu, Haiyang; Choi, Changho; Simon, Gyorgy; Eilertson, Eric

    2005-01-01

    .... The University of Minnesota team has developed a comprehensive, multi-stage analysis framework which provides tools and analysis methodologies to aid cyber security analysts in improving the quality...

  12. A Quality Assessment Tool for Non-Specialist Users of Regression Analysis

    Science.gov (United States)

    Argyrous, George

    2015-01-01

    This paper illustrates the use of a quality assessment tool for regression analysis. It is designed for non-specialist "consumers" of evidence, such as policy makers. The tool provides a series of questions such consumers of evidence can ask to interrogate regression analysis, and is illustrated with reference to a recent study published…

  13. A survey of tools for the analysis of quantitative PCR (qPCR) data.

    Science.gov (United States)

    Pabinger, Stephan; Rödiger, Stefan; Kriegner, Albert; Vierlinger, Klemens; Weinhäusel, Andreas

    2014-09-01

    Real-time quantitative polymerase-chain-reaction (qPCR) is a standard technique in most laboratories used for various applications in basic research. Analysis of qPCR data is a crucial part of the entire experiment, which has led to the development of a plethora of methods. The released tools either cover specific parts of the workflow or provide complete analysis solutions. Here, we surveyed 27 open-access software packages and tools for the analysis of qPCR data. The survey includes 8 Microsoft Windows, 5 web-based, 9 R-based and 5 tools from other platforms. Reviewed packages and tools support the analysis of different qPCR applications, such as RNA quantification, DNA methylation, genotyping, identification of copy number variations, and digital PCR. We report an overview of the functionality, features and specific requirements of the individual software tools, such as data exchange formats, availability of a graphical user interface, included procedures for graphical data presentation, and offered statistical methods. In addition, we provide an overview about quantification strategies, and report various applications of qPCR. Our comprehensive survey showed that most tools use their own file format and only a fraction of the currently existing tools support the standardized data exchange format RDML. To allow a more streamlined and comparable analysis of qPCR data, more vendors and tools need to adapt the standardized format to encourage the exchange of data between instrument software, analysis tools, and researchers.

  14. Image edge detection based tool condition monitoring with morphological component analysis.

    Science.gov (United States)

    Yu, Xiaolong; Lin, Xin; Dai, Yiquan; Zhu, Kunpeng

    2017-07-01

    The measurement and monitoring of tool condition are keys to the product precision in the automated manufacturing. To meet the need, this study proposes a novel tool wear monitoring approach based on the monitored image edge detection. Image edge detection has been a fundamental tool to obtain features of images. This approach extracts the tool edge with morphological component analysis. Through the decomposition of original tool wear image, the approach reduces the influence of texture and noise for edge measurement. Based on the target image sparse representation and edge detection, the approach could accurately extract the tool wear edge with continuous and complete contour, and is convenient in charactering tool conditions. Compared to the celebrated algorithms developed in the literature, this approach improves the integrity and connectivity of edges, and the results have shown that it achieves better geometry accuracy and lower error rate in the estimation of tool conditions. Copyright © 2017 ISA. Published by Elsevier Ltd. All rights reserved.

  15. Analysis of mechanism of carbide tool wear and control by wear process

    Directory of Open Access Journals (Sweden)

    Pham Hoang Trung

    2017-01-01

    Full Text Available The analysis of physic-mechanical and thermal physic properties of hard alloys depending on their chemical composition is conducted. The correlation of cutting properties and regularities of carbide tool wear with cutting conditions and thermal physic properties of tool material are disclosed. Significant influence on the tool wear of not only mechanical, but, in the first place, thermal physic properties of tool and structural materials is established by the researches of Russian scientists, because in the range of industrial used cutting speeds the cause of tool wear are diffusion processes. The directions of intensity decreasing of tool wear by determining rational processing conditions, the choice of tool materials and wear-resistant coating on tool surface are defined.

  16. Automated Multivariate Optimization Tool for Energy Analysis: Preprint

    Energy Technology Data Exchange (ETDEWEB)

    Ellis, P. G.; Griffith, B. T.; Long, N.; Torcellini, P. A.; Crawley, D.

    2006-07-01

    Building energy simulations are often used for trial-and-error evaluation of ''what-if'' options in building design--a limited search for an optimal solution, or ''optimization''. Computerized searching has the potential to automate the input and output, evaluate many options, and perform enough simulations to account for the complex interactions among combinations of options. This paper describes ongoing efforts to develop such a tool. The optimization tool employs multiple modules, including a graphical user interface, a database, a preprocessor, the EnergyPlus simulation engine, an optimization engine, and a simulation run manager. Each module is described and the overall application architecture is summarized.

  17. An online database for plant image analysis software tools

    OpenAIRE

    Lobet, Guillaume; Draye, Xavier; Périlleux, Claire

    2013-01-01

    Background: Recent years have seen an increase in methods for plant phenotyping using image analyses. These methods require new software solutions for data extraction and treatment. These solutions are instrumental in supporting various research pipelines, ranging from the localisation of cellular compounds to the quantification of tree canopies. However, due to the variety of existing tools and the lack of central repository, it is challenging for researchers to identify the software that is...

  18. Tools for Developing a Quality Management Program: Proactive Tools (Process Mapping, Value Stream Mapping, Fault Tree Analysis, and Failure Mode and Effects Analysis)

    International Nuclear Information System (INIS)

    Rath, Frank

    2008-01-01

    This article examines the concepts of quality management (QM) and quality assurance (QA), as well as the current state of QM and QA practices in radiotherapy. A systematic approach incorporating a series of industrial engineering-based tools is proposed, which can be applied in health care organizations proactively to improve process outcomes, reduce risk and/or improve patient safety, improve through-put, and reduce cost. This tool set includes process mapping and process flowcharting, failure modes and effects analysis (FMEA), value stream mapping, and fault tree analysis (FTA). Many health care organizations do not have experience in applying these tools and therefore do not understand how and when to use them. As a result there are many misconceptions about how to use these tools, and they are often incorrectly applied. This article describes these industrial engineering-based tools and also how to use them, when they should be used (and not used), and the intended purposes for their use. In addition the strengths and weaknesses of each of these tools are described, and examples are given to demonstrate the application of these tools in health care settings

  19. Elevation Difference and Bouguer Anomaly Analysis Tool (EDBAAT) User's Guide

    Science.gov (United States)

    Smittle, Aaron M.; Shoberg, Thomas G.

    2017-06-16

    This report describes a software tool that imports gravity anomaly point data from the Gravity Database of the United States (GDUS) of the National Geospatial-Intelligence Agency and University of Texas at El Paso along with elevation data from The National Map (TNM) of the U.S. Geological Survey that lie within a user-specified geographic area of interest. Further, the tool integrates these two sets of data spatially and analyzes the consistency of the elevation of each gravity station from the GDUS with TNM elevation data; it also evaluates the consistency of gravity anomaly data within the GDUS data repository. The tool bins the GDUS data based on user-defined criteria of elevation misfit between the GDUS and TNM elevation data. It also provides users with a list of points from the GDUS data, which have Bouguer anomaly values that are considered outliers (two standard deviations or greater) with respect to other nearby GDUS anomaly data. “Nearby” can be defined by the user at time of execution. These outputs should allow users to quickly and efficiently choose which points from the GDUS would be most useful in reconnaissance studies or in augmenting and extending the range of individual gravity studies.

  20. Performance Analysis of the Capability Assessment Tool for Sustainable Manufacturing

    Directory of Open Access Journals (Sweden)

    Enda Crossin

    2013-08-01

    Full Text Available This paper explores the performance of a novel capability assessment tool, developed to identify capability gaps and associated training and development requirements across the supply chain for environmentally-sustainable manufacturing. The tool was developed to assess 170 capabilities that have been clustered with respect to key areas of concern such as managing energy, water, material resources, carbon emissions and waste as well as environmental management practices for sustainability. Two independent expert teams used the tool to assess a sample group of five first and second tier sports apparel and footwear suppliers within the supply chain of a global sporting goods manufacturer in Asia. The paper addresses the reliability and robustness of the developed assessment method by formulating the expected links between the assessment results. The management practices of the participating suppliers were shown to be closely connected to their performance in managing their resources and emissions. The companies’ initiatives in implementing energy efficiency measures were found to be generally related to their performance in carbon emissions management. The suppliers were also asked to undertake a self-assessment by using a short questionnaire. The large gap between the comprehensive assessment and these in-house self-assessments revealed the suppliers’ misconceptions about their capabilities.

  1. Sensitivity Analysis for Design Optimization Integrated Software Tools, Phase I

    Data.gov (United States)

    National Aeronautics and Space Administration — The objective of this proposed project is to provide a new set of sensitivity analysis theory and codes, the Sensitivity Analysis for Design Optimization Integrated...

  2. The Arabidopsis co-expression tool (act): a WWW-based tool and database for microarray-based gene expression analysis

    DEFF Research Database (Denmark)

    Jen, C. H.; Manfield, I. W.; Michalopoulos, D. W.

    2006-01-01

    be examined using the novel clique finder tool to determine the sets of genes most likely to be regulated in a similar manner. In combination, these tools offer three levels of analysis: creation of correlation lists of co-expressed genes, refinement of these lists using two-dimensional scatter plots......We present a new WWW-based tool for plant gene analysis, the Arabidopsis Co-Expression Tool (act) , based on a large Arabidopsis thaliana microarray data set obtained from the Nottingham Arabidopsis Stock Centre. The co-expression analysis tool allows users to identify genes whose expression...

  3. Application of Statistical Tools for Data Analysis and Interpretation in Rice Plant Pathology

    Directory of Open Access Journals (Sweden)

    Parsuram Nayak

    2018-01-01

    Full Text Available There has been a significant advancement in the application of statistical tools in plant pathology during the past four decades. These tools include multivariate analysis of disease dynamics involving principal component analysis, cluster analysis, factor analysis, pattern analysis, discriminant analysis, multivariate analysis of variance, correspondence analysis, canonical correlation analysis, redundancy analysis, genetic diversity analysis, and stability analysis, which involve in joint regression, additive main effects and multiplicative interactions, and genotype-by-environment interaction biplot analysis. The advanced statistical tools, such as non-parametric analysis of disease association, meta-analysis, Bayesian analysis, and decision theory, take an important place in analysis of disease dynamics. Disease forecasting methods by simulation models for plant diseases have a great potentiality in practical disease control strategies. Common mathematical tools such as monomolecular, exponential, logistic, Gompertz and linked differential equations take an important place in growth curve analysis of disease epidemics. The highly informative means of displaying a range of numerical data through construction of box and whisker plots has been suggested. The probable applications of recent advanced tools of linear and non-linear mixed models like the linear mixed model, generalized linear model, and generalized linear mixed models have been presented. The most recent technologies such as micro-array analysis, though cost effective, provide estimates of gene expressions for thousands of genes simultaneously and need attention by the molecular biologists. Some of these advanced tools can be well applied in different branches of rice research, including crop improvement, crop production, crop protection, social sciences as well as agricultural engineering. The rice research scientists should take advantage of these new opportunities adequately in

  4. Molecular tools for carotenogenesis analysis in the zygomycete Mucor circinelloides.

    Science.gov (United States)

    Torres-Martínez, Santiago; Ruiz-Vázquez, Rosa M; Garre, Victoriano; López-García, Sergio; Navarro, Eusebio; Vila, Ana

    2012-01-01

    The carotene producer fungus Mucor circinelloides is the zygomycete more amenable to genetic manipulations by using molecular tools. Since the initial development of an effective procedure of genetic transformation, more than two decades ago, the availability of new molecular approaches such as gene replacement techniques and gene expression inactivation by RNA silencing, in addition to the sequencing of its genome, has made Mucor a valuable organism for the study of a number of processes. Here we describe in detail the main techniques and methods currently used to manipulate M. circinelloides, including transformation, gene replacement, gene silencing, RNAi, and immunoprecipitation.

  5. Energy life-cycle analysis modeling and decision support tool

    Energy Technology Data Exchange (ETDEWEB)

    Hoza, M.; White, M.E.

    1993-06-01

    As one of DOE`s five multi-program national laboratories, Pacific Northwest Laboratory (PNL) develops and deploys technology for national missions in energy and the environment. The Energy Information Systems Group, within the Laboratory`s Computer Sciences Department, focuses on the development of the computational and data communications infrastructure and automated tools for the Transmission and Distribution energy sector and for advanced process engineering applications. The energy industry is being forced to operate in new ways and under new constraints. It is in a reactive mode, reacting to policies and politics, and to economics and environmental pressures. The transmission and distribution sectors are being forced to find new ways to maximize the use of their existing infrastructure, increase energy efficiency, and minimize environmental impacts, while continuing to meet the demands of an ever increasing population. The creation of a sustainable energy future will be a challenge for both the soft and hard sciences. It will require that we as creators of our future be bold in the way we think about our energy future and aggressive in its development. The development of tools to help bring about a sustainable future will not be simple either. The development of ELCAM, for example, represents a stretch for the computational sciences as well as for each of the domain sciences such as economics, which will have to be team members.

  6. Cemented carbide cutting tool: Laser processing and thermal stress analysis

    Energy Technology Data Exchange (ETDEWEB)

    Yilbas, B.S. [Mechanical Engineering Department, KFUPM, Box 1913, Dhahran 31261 (Saudi Arabia)]. E-mail: bsyilbas@kfupm.edu.sa; Arif, A.F.M. [Mechanical Engineering Department, KFUPM, Box 1913, Dhahran 31261 (Saudi Arabia); Karatas, C. [Engineering Faculty, Hacettepe University, Ankara (Turkey); Ahsan, M. [Mechanical Engineering Department, KFUPM, Box 1913, Dhahran 31261 (Saudi Arabia)

    2007-04-15

    Laser treatment of cemented carbide tool surface consisting of W, C, TiC, TaC is examined and thermal stress developed due to temperature gradients in the laser treated region is predicted numerically. Temperature rise in the substrate material is computed numerically using the Fourier heating model. Experiment is carried out to treat the tool surfaces using a CO{sub 2} laser while SEM, XRD and EDS are carried out for morphological and structural characterization of the treated surface. Laser parameters were selected include the laser output power, duty cycle, assisting gas pressure, scanning speed, and nominal focus setting of the focusing lens. It is found that temperature gradient attains significantly high values below the surface particularly for titanium and tantalum carbides, which in turn, results in high thermal stress generation in this region. SEM examination of laser treated surface and its cross section reveals that crack initiation below the surface occurs and crack extends over the depth of the laser treated region.

  7. Analysis for Non-Traditional Security Challenges: Methods and Tools

    Science.gov (United States)

    2006-11-20

    C’EST LA VIE! - Hard Issues "* Will the violence continue to escalate? * Trend analysis of web text searches such as Blacklight; Public poll analysis...System M&S Modeling and Simulation MCO Major Contingency Operation MIT Massachusetts Institute of Technology MMOG Massively Multiplayer Online Game (WG

  8. Porcupine : A visual pipeline tool for neuroimaging analysis

    NARCIS (Netherlands)

    van Mourik, Tim; Snoek, Lukas; Knapen, T; Norris, David G

    The field of neuroimaging is rapidly adopting a more reproducible approach to data acquisition and analysis. Data structures and formats are being standardised and data analyses are getting more automated. However, as data analysis becomes more complicated, researchers often have to write longer

  9. Financial analysis as a tool for asset and capital management

    OpenAIRE

    BLAŽKOVÁ, Andrea

    2010-01-01

    This thesis deals with general characteristics of financial analysis, the importance of financial analysis for financial management, an expression of financial ratios, including their systems, economic value added, and some bankruptcy and creditworthy models. The analytical section of the thesis applies selected financial indicators to interpret the financial situation of the constructional company Hochtief CZ.

  10. The Photoplethismographic Signal Processed with Nonlinear Time Series Analysis Tools

    International Nuclear Information System (INIS)

    Hernandez Caceres, Jose Luis; Hong, Rolando; Garcia Lanz, Abel; Garcia Dominguez, Luis; Cabannas, Karelia

    2001-01-01

    Finger photoplethismography (PPG) signals were submitted to nonlinear time series analysis. The applied analytical techniques were: (i) High degree polynomial fitting for baseline estimation; (ii) FFT analysis for estimating power spectra; (iii) fractal dimension estimation via the Higuchi's time-domain method, and (iv) kernel nonparametric estimation for reconstructing noise free-attractors and also for estimating signal's stochastic components

  11. Using a Bracketed Analysis as a Learning Tool.

    Science.gov (United States)

    Main, Keith

    1995-01-01

    Bracketed analysis is an examination of experiences within a defined time frame or "bracket." It assumes the ability to learn from any source: behaviors, emotions, rational and irrational thought, insights, reflections, and reactions. A bracketed analysis to determine what went wrong with a grant proposal that missed deadlines…

  12. Technical analysis as a tool of market timing

    International Nuclear Information System (INIS)

    Rafferty, J.

    2002-01-01

    Risk management teams carry a high burden because businesses have to compete on a global scale. Timing is everything, once a decision to hedge in the futures has been made. How to determine when it is a good time to buy or sell, and be certain that this information has not already been factored into the price is tricky. There are two schools: fundamental analysis and technical analysis. Statistics and supply and demand data are examined to determine why in fundamental analysis, while technical analysis determines when by interpreting charts. With the help of charts that were displayed, the author examined the price of crude oil in 1990 and 1991 in an attempt to demonstrate technical analysis. Technical analysis is based on mathematics, but it is more art than science. It looks at market patterns that repeat themselves endlessly. Markets almost always enter into a period of consolidation or distribution when they break out. Additional charts displaying the price of crude oil for various periods from 1986 to 1991 were presented and analysed. The author concluded by stating that technical analysis provides visual guidelines to hedgers and traders to assist them in making intelligent forecasts about price and risk. figs

  13. AMIDE: A Free Software Tool for Multimodality Medical Image Analysis

    Directory of Open Access Journals (Sweden)

    Andreas Markus Loening

    2003-07-01

    Full Text Available Amide's a Medical Image Data Examiner (AMIDE has been developed as a user-friendly, open-source software tool for displaying and analyzing multimodality volumetric medical images. Central to the package's abilities to simultaneously display multiple data sets (e.g., PET, CT, MRI and regions of interest is the on-demand data reslicing implemented within the program. Data sets can be freely shifted, rotated, viewed, and analyzed with the program automatically handling interpolation as needed from the original data. Validation has been performed by comparing the output of AMIDE with that of several existing software packages. AMIDE runs on UNIX, Macintosh OS X, and Microsoft Windows platforms, and it is freely available with source code under the terms of the GNU General Public License.

  14. Dynamic response analysis as a tool for investigating transport mechanisms

    International Nuclear Information System (INIS)

    Dudok de Wit, Th.; Joye, B.; Lister, J.B.; Moret, J.M.

    1990-01-01

    Dynamic response analysis provides an attractive method for studying transport mechanisms in tokamak plasmas. The analysis of the radial response has already been widely used for heat and particle transport studies. The frequency dependence of the dynamic response, which is often omitted, reveals further properties of the dominant transport mechanisms. Extended measurements of the soft X-ray emission were carried out on the TCA tokamak in order to determine the underlying transport processes. (author) 5 refs., 2 figs

  15. Framework for Multidisciplinary Analysis, Design, and Optimization with High-Fidelity Analysis Tools

    Science.gov (United States)

    Orr, Stanley A.; Narducci, Robert P.

    2009-01-01

    A plan is presented for the development of a high fidelity multidisciplinary optimization process for rotorcraft. The plan formulates individual disciplinary design problems, identifies practical high-fidelity tools and processes that can be incorporated in an automated optimization environment, and establishes statements of the multidisciplinary design problem including objectives, constraints, design variables, and cross-disciplinary dependencies. Five key disciplinary areas are selected in the development plan. These are rotor aerodynamics, rotor structures and dynamics, fuselage aerodynamics, fuselage structures, and propulsion / drive system. Flying qualities and noise are included as ancillary areas. Consistency across engineering disciplines is maintained with a central geometry engine that supports all multidisciplinary analysis. The multidisciplinary optimization process targets the preliminary design cycle where gross elements of the helicopter have been defined. These might include number of rotors and rotor configuration (tandem, coaxial, etc.). It is at this stage that sufficient configuration information is defined to perform high-fidelity analysis. At the same time there is enough design freedom to influence a design. The rotorcraft multidisciplinary optimization tool is built and substantiated throughout its development cycle in a staged approach by incorporating disciplines sequentially.

  16. Customer Data Analysis Model using Business Intelligence Tools in Telecommunication Companies

    Directory of Open Access Journals (Sweden)

    Monica LIA

    2015-10-01

    Full Text Available This article presents a customer data analysis model in a telecommunication company and business intelligence tools for data modelling, transforming, data visualization and dynamic reports building . For a mature market, knowing the information inside the data and making forecast for strategic decision become more important in Romanian Market. Business Intelligence tools are used in business organization as support for decision making.

  17. RdTools: An Open Source Python Library for PV Degradation Analysis

    Energy Technology Data Exchange (ETDEWEB)

    Deceglie, Michael G [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Jordan, Dirk [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Nag, Ambarish [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Deline, Christopher A [National Renewable Energy Laboratory (NREL), Golden, CO (United States); Shinn, Adam [kWh Analytics

    2018-05-04

    RdTools is a set of Python tools for analysis of photovoltaic data. In particular, PV production data is evaluated over several years to obtain rates of performance degradation over time. Rdtools can handle both high frequency (hourly or better) or low frequency (daily, weekly, etc.) datasets. Best results are obtained with higher frequency data.

  18. DEBRISK, a Tool for Re-Entry Risk Analysis

    Science.gov (United States)

    Omaly, P.; Spel, M.

    2012-01-01

    An act of French parliament, adopted in 2008, imposes satellite constructors to evaluate the end-of-life operations in order to assure the risk mitigation of their satellites. One important element in this evaluation is the estimation of the mass and impact energy of the satellite debris after atmospheric re-entry. For this purpose, CNES has developed the tool DEBRISK which allows the operator to simulate the re-entry phase and to study the demise altitudes or impact energy of the individual fragments of the original satellite. DEBRISK is based on the so called object based approach. Using this approach, a breakup altitude is assumed where the satellite disintegrates due to the pressure loads. This altitude is typically around 78 km. After breakup, the satellite structure is modelled by a parent-child approach, where each child has its birth criterion. In the simplest approach the child is born after demise of the parent object. This could be the case of an object A containing an object B which is in the interior of object A and thus not exposed to the atmosphere. Each object is defined by: - its shape, attitude and dimensions, - the material along with their physical properties - the state and velocity vectors. The shape, attitude and dimensions define the aerodynamic drag of the object which is input to the 3DOF trajectory modelling. The aerodynamic mass used in the equation of motion is defined as the sum of the object's own mass and the mass of the object's offspring. A new born object inherits the state vector of the parent object. The shape, attitude and dimensions also define the heating rates experienced by the object. The heating rate is integrated in time up to the point where the melting temperature is reached. The mass of melted material is computed from the excess heat and the material properties. After each step the amount of ablated material is determined using the lumped mass approach and is peeled off from the object, updating mass and shape of the

  19. Principal Component Analysis - A Powerful Tool in Computing Marketing Information

    Directory of Open Access Journals (Sweden)

    Constantin C.

    2014-12-01

    Full Text Available This paper is about an instrumental research regarding a powerful multivariate data analysis method which can be used by the researchers in order to obtain valuable information for decision makers that need to solve the marketing problem a company face with. The literature stresses the need to avoid the multicollinearity phenomenon in multivariate analysis and the features of Principal Component Analysis (PCA in reducing the number of variables that could be correlated with each other to a small number of principal components that are uncorrelated. In this respect, the paper presents step-by-step the process of applying the PCA in marketing research when we use a large number of variables that naturally are collinear.

  20. Ionic liquid thermal stabilities: decomposition mechanisms and analysis tools.

    Science.gov (United States)

    Maton, Cedric; De Vos, Nils; Stevens, Christian V

    2013-07-07

    The increasing amount of papers published on ionic liquids generates an extensive quantity of data. The thermal stability data of divergent ionic liquids are collected in this paper with attention to the experimental set-up. The influence and importance of the latter parameters are broadly addressed. Both ramped temperature and isothermal thermogravimetric analysis are discussed, along with state-of-the-art methods, such as TGA-MS and pyrolysis-GC. The strengths and weaknesses of the different methodologies known to date demonstrate that analysis methods should be in line with the application. The combination of data from advanced analysis methods allows us to obtain in-depth information on the degradation processes. Aided with computational methods, the kinetics and thermodynamics of thermal degradation are revealed piece by piece. The better understanding of the behaviour of ionic liquids at high temperature allows selective and application driven design, as well as mathematical prediction for engineering purposes.

  1. SCALE 5: Powerful new criticality safety analysis tools

    International Nuclear Information System (INIS)

    Bowman, Stephen M.; Hollenbach, Daniel F.; Dehart, Mark D.; Rearden, Bradley T.; Gauld, Ian C.; Goluoglu, Sedat

    2003-01-01

    Version 5 of the SCALE computer software system developed at Oak Ridge National Laboratory, scheduled for release in December 2003, contains several significant new modules and sequences for criticality safety analysis and marks the most important update to SCALE in more than a decade. This paper highlights the capabilities of these new modules and sequences, including continuous energy flux spectra for processing multigroup problem-dependent cross sections; one- and three-dimensional sensitivity and uncertainty analyses for criticality safety evaluations; two-dimensional flexible mesh discrete ordinates code; automated burnup-credit analysis sequence; and one-dimensional material distribution optimization for criticality safety. (author)

  2. Some developments in human reliability analysis approaches and tools

    Energy Technology Data Exchange (ETDEWEB)

    Hannaman, G W; Worledge, D H

    1988-01-01

    Since human actions have been recognized as an important contributor to safety of operating plants in most industries, research has been performed to better understand and account for the way operators interact during accidents through the control room and equipment interface. This paper describes the integration of a series of research projects sponsored by the Electric Power Research Institute to strengthen the methods for performing the human reliability analysis portion of the probabilistic safety studies. It focuses on the analytical framework used to guide the analysis, the development of the models for quantifying time-dependent actions, and simulator experiments used to validate the models.

  3. PRODUCTION AND PURIFICATION OF IgY ANTIBODIES AS A NOVEL TOOL TO PURIFY THE NR1 SUBUNIT OF NMDA RECEPTO

    Directory of Open Access Journals (Sweden)

    Edgar Antonio Reyes Montaño

    2011-12-01

    Full Text Available Producing polyclonal antibodies (IgY inchickens has advantages over those obtainedin other animal models, since theyhave been used as a tool for studyingdifferent proteins (NMDA glutamate receptorin our case, specifically the NR1subunit. We produced specific antibodiesagainst expression products by thealternative splicing of the gene encodingNMDA receptor NR1 subunit in adult ratbrain. Three peptides corresponding tothe splicing sites (N1, C1 and C2’ cassetteswere designed, synthesised and usedindividually as antigens in hens. Specificimmunoglobulins were purified fromyolks. The antibodies were then used forpurifying the NMDA receptor NR1 subunitusing affinity chromatography couplingthe three antibodies to the support.R

  4. The entropy concept. A powerful tool for multiphase flow analysis

    International Nuclear Information System (INIS)

    Kolev, Nikolay Ivanov

    2007-01-01

    This work summarizes the system of partial differential equations describing multiphase, multi-component flows in arbitrary geometry including porous structures with arbitrary thermal and mechanical interactions among the fields and between each field and the structure. Each of the fluids is designed as a universal mixture of miscible and immiscible component. The system contains the rigorously derived entropy equations which are used instead of the primitive form of the energy conservation. Based on well established mathematical theorems the equations are local volume and time averaged. The so called volume conservation equation allowing establishing close coupling between pressure and density changes of all of the participating velocity fields is presented. It replaces one of the mass conservation equations. The system is solved within the computer code system IVA together with large number of constitutive relationships for closing it in arbitrary geometry. The extensive validation on many hundreds of simple- and complex experiments, including the many industrial applications, demonstrates the versatility and the power of this analytical tool for designing complex processes in the industry and analyzing complex processes in the nature. (author)

  5. Introduction, comparison, and validation of Meta-Essentials : A free and simple tool for meta-analysis

    NARCIS (Netherlands)

    R. Suurmond (Robert); H.J. van Rhee (Henk); A. Hak (Tony)

    2017-01-01

    markdownabstractWe present a new tool for meta‐analysis, _Meta‐Essentials_, which is free of charge and easy to use. In this paper, we introduce the tool and compare its features to other tools for meta‐analysis.We also provide detailed information on the validation of the tool. Although free of

  6. Principal Component Analysis: Most Favourite Tool in Chemometrics

    Indian Academy of Sciences (India)

    Abstract. Principal component analysis (PCA) is the most commonlyused chemometric technique. It is an unsupervised patternrecognition technique. PCA has found applications in chemistry,biology, medicine and economics. The present work attemptsto understand how PCA work and how can we interpretits results.

  7. ProbFAST: Probabilistic Functional Analysis System Tool

    Directory of Open Access Journals (Sweden)

    Oliveira Thiago YK

    2010-03-01

    Full Text Available Abstract Background The post-genomic era has brought new challenges regarding the understanding of the organization and function of the human genome. Many of these challenges are centered on the meaning of differential gene regulation under distinct biological conditions and can be performed by analyzing the Multiple Differential Expression (MDE of genes associated with normal and abnormal biological processes. Currently MDE analyses are limited to usual methods of differential expression initially designed for paired analysis. Results We proposed a web platform named ProbFAST for MDE analysis which uses Bayesian inference to identify key genes that are intuitively prioritized by means of probabilities. A simulated study revealed that our method gives a better performance when compared to other approaches and when applied to public expression data, we demonstrated its flexibility to obtain relevant genes biologically associated with normal and abnormal biological processes. Conclusions ProbFAST is a free accessible web-based application that enables MDE analysis on a global scale. It offers an efficient methodological approach for MDE analysis of a set of genes that are turned on and off related to functional information during the evolution of a tumor or tissue differentiation. ProbFAST server can be accessed at http://gdm.fmrp.usp.br/probfast.

  8. ProbFAST: Probabilistic functional analysis system tool.

    Science.gov (United States)

    Silva, Israel T; Vêncio, Ricardo Z N; Oliveira, Thiago Y K; Molfetta, Greice A; Silva, Wilson A

    2010-03-30

    The post-genomic era has brought new challenges regarding the understanding of the organization and function of the human genome. Many of these challenges are centered on the meaning of differential gene regulation under distinct biological conditions and can be performed by analyzing the Multiple Differential Expression (MDE) of genes associated with normal and abnormal biological processes. Currently MDE analyses are limited to usual methods of differential expression initially designed for paired analysis. We proposed a web platform named ProbFAST for MDE analysis which uses Bayesian inference to identify key genes that are intuitively prioritized by means of probabilities. A simulated study revealed that our method gives a better performance when compared to other approaches and when applied to public expression data, we demonstrated its flexibility to obtain relevant genes biologically associated with normal and abnormal biological processes. ProbFAST is a free accessible web-based application that enables MDE analysis on a global scale. It offers an efficient methodological approach for MDE analysis of a set of genes that are turned on and off related to functional information during the evolution of a tumor or tissue differentiation. ProbFAST server can be accessed at http://gdm.fmrp.usp.br/probfast.

  9. Gipsy 3D : Analysis, Visualization and Vo-Tools

    NARCIS (Netherlands)

    Ruiz, J. E.; Santander-Vela, J. D.; Espigares, V.; Verdes-Montenegro, L.; Hulst, J. M. van der

    2009-01-01

    The scientific goals of the AMIGA project are based on the analysis of a significant amount of spectroscopic 3D data. In order to perform this work we present an initiative to develop a new VO compliant package, including present core applications and tasks offered by the Groningen Image Processing

  10. Television as an Instructional Tool for Concept Analysis

    Science.gov (United States)

    Benwari, Nnenna Ngozi

    2015-01-01

    This is a study of the perception of teachers on the use of television for concept analysis in the classroom. The population of the study is all the 9,784 Secondary School teachers in Bayelsa State of Nigeria out of which 110 teachers were randomly selected using the proportional sampling method. The instrument is a questionnaire designed by the…

  11. Cluster analysis as a prediction tool for pregnancy outcomes.

    Science.gov (United States)

    Banjari, Ines; Kenjerić, Daniela; Šolić, Krešimir; Mandić, Milena L

    2015-03-01

    Considering specific physiology changes during gestation and thinking of pregnancy as a "critical window", classification of pregnant women at early pregnancy can be considered as crucial. The paper demonstrates the use of a method based on an approach from intelligent data mining, cluster analysis. Cluster analysis method is a statistical method which makes possible to group individuals based on sets of identifying variables. The method was chosen in order to determine possibility for classification of pregnant women at early pregnancy to analyze unknown correlations between different variables so that the certain outcomes could be predicted. 222 pregnant women from two general obstetric offices' were recruited. The main orient was set on characteristics of these pregnant women: their age, pre-pregnancy body mass index (BMI) and haemoglobin value. Cluster analysis gained a 94.1% classification accuracy rate with three branch- es or groups of pregnant women showing statistically significant correlations with pregnancy outcomes. The results are showing that pregnant women both of older age and higher pre-pregnancy BMI have a significantly higher incidence of delivering baby of higher birth weight but they gain significantly less weight during pregnancy. Their babies are also longer, and these women have significantly higher probability for complications during pregnancy (gestosis) and higher probability of induced or caesarean delivery. We can conclude that the cluster analysis method can appropriately classify pregnant women at early pregnancy to predict certain outcomes.

  12. Enhancing Safeguards through Information Analysis: Business Analytics Tools

    International Nuclear Information System (INIS)

    Vincent, J.; Midwinter, J.

    2015-01-01

    For the past 25 years the IBM i2 Intelligence Analysis product portfolio has assisted over 4,500 organizations across law enforcement, defense, government agencies, and commercial private sector businesses to maximize the value of the mass of information to discover and disseminate actionable intelligence that can help identify, investigate, predict, prevent, and disrupt criminal, terrorist, and fraudulent acts; safeguarding communities, organizations, infrastructures, and investments. The collaborative Intelligence Analysis environment delivered by i2 is specifically designed to be: · scalable: supporting business needs as well as operational and end user environments · modular: an architecture which can deliver maximum operational flexibility with ability to add complimentary analytics · interoperable: integrating with existing environments and eases information sharing across partner agencies · extendable: providing an open source developer essential toolkit, examples, and documentation for custom requirements i2 Intelligence Analysis brings clarity to complex investigations and operations by delivering industry leading multidimensional analytics that can be run on-demand across disparate data sets or across a single centralized analysis environment. The sole aim is to detect connections, patterns, and relationships hidden within high-volume, all-source data, and to create and disseminate intelligence products in near real time for faster informed decision making. (author)

  13. INTERFACING INTERACTIVE DATA ANALYSIS TOOLS WITH THE GRID: THE PPDG CS-11 ACTIVITY

    International Nuclear Information System (INIS)

    Perl, Joseph

    2003-01-01

    For today's physicists, who work in large geographically distributed collaborations, the data grid promises significantly greater capabilities for analysis of experimental data and production of physics results than is possible with today's ''remote access'' technologies. The goal of letting scientists at their home institutions interact with and analyze data as if they were physically present at the major laboratory that houses their detector and computer center has yet to be accomplished. The Particle Physics Data Grid project (www.ppdg.net) has recently embarked on an effort to ''Interface and Integrate Interactive Data Analysis Tools with the grid and identify Common Components and Services''. The initial activities are to collect known and identify new requirements for grid services and analysis tools from a range of current and future experiments to determine if existing plans for tools and services meet these requirements. Follow-on activities will foster the interaction between grid service developers, analysis tool developers, experiment analysis framework developers and end user physicists, and will identify and carry out specific development/integration work so that interactive analysis tools utilizing grid services actually provide the capabilities that users need. This talk will summarize what we know of requirements for analysis tools and grid services, as well as describe the identified areas where more development work is needed

  14. Sensitivity Analysis of Weather Variables on Offsite Consequence Analysis Tools in South Korea and the United States.

    Science.gov (United States)

    Kim, Min-Uk; Moon, Kyong Whan; Sohn, Jong-Ryeul; Byeon, Sang-Hoon

    2018-05-18

    We studied sensitive weather variables for consequence analysis, in the case of chemical leaks on the user side of offsite consequence analysis (OCA) tools. We used OCA tools Korea Offsite Risk Assessment (KORA) and Areal Location of Hazardous Atmospheres (ALOHA) in South Korea and the United States, respectively. The chemicals used for this analysis were 28% ammonia (NH₃), 35% hydrogen chloride (HCl), 50% hydrofluoric acid (HF), and 69% nitric acid (HNO₃). The accident scenarios were based on leakage accidents in storage tanks. The weather variables were air temperature, wind speed, humidity, and atmospheric stability. Sensitivity analysis was performed using the Statistical Package for the Social Sciences (SPSS) program for dummy regression analysis. Sensitivity analysis showed that impact distance was not sensitive to humidity. Impact distance was most sensitive to atmospheric stability, and was also more sensitive to air temperature than wind speed, according to both the KORA and ALOHA tools. Moreover, the weather variables were more sensitive in rural conditions than in urban conditions, with the ALOHA tool being more influenced by weather variables than the KORA tool. Therefore, if using the ALOHA tool instead of the KORA tool in rural conditions, users should be careful not to cause any differences in impact distance due to input errors of weather variables, with the most sensitive one being atmospheric stability.

  15. Sensitivity Analysis of Weather Variables on Offsite Consequence Analysis Tools in South Korea and the United States

    Directory of Open Access Journals (Sweden)

    Min-Uk Kim

    2018-05-01

    Full Text Available We studied sensitive weather variables for consequence analysis, in the case of chemical leaks on the user side of offsite consequence analysis (OCA tools. We used OCA tools Korea Offsite Risk Assessment (KORA and Areal Location of Hazardous Atmospheres (ALOHA in South Korea and the United States, respectively. The chemicals used for this analysis were 28% ammonia (NH3, 35% hydrogen chloride (HCl, 50% hydrofluoric acid (HF, and 69% nitric acid (HNO3. The accident scenarios were based on leakage accidents in storage tanks. The weather variables were air temperature, wind speed, humidity, and atmospheric stability. Sensitivity analysis was performed using the Statistical Package for the Social Sciences (SPSS program for dummy regression analysis. Sensitivity analysis showed that impact distance was not sensitive to humidity. Impact distance was most sensitive to atmospheric stability, and was also more sensitive to air temperature than wind speed, according to both the KORA and ALOHA tools. Moreover, the weather variables were more sensitive in rural conditions than in urban conditions, with the ALOHA tool being more influenced by weather variables than the KORA tool. Therefore, if using the ALOHA tool instead of the KORA tool in rural conditions, users should be careful not to cause any differences in impact distance due to input errors of weather variables, with the most sensitive one being atmospheric stability.

  16. EZ and GOSSIP, two new VO compliant tools for spectral analysis

    Science.gov (United States)

    Franzetti, P.; Garill, B.; Fumana, M.; Paioro, L.; Scodeggio, M.; Paltani, S.; Scaramella, R.

    2008-10-01

    We present EZ and GOSSIP, two new VO compliant tools dedicated to spectral analysis. EZ is a tool to perform automatic redshift measurement; GOSSIP is a tool created to perform the SED fitting procedure in a simple, user friendly and efficient way. These two tools have been developed by the PANDORA Group at INAF-IASF (Milano); EZ has been developed in collaboration with Osservatorio Monte Porzio (Roma) and Integral Science Data Center (Geneve). EZ is released to the astronomical community; GOSSIP is currently in beta-testing.

  17. Cluster Analysis as an Analytical Tool of Population Policy

    Directory of Open Access Journals (Sweden)

    Oksana Mikhaylovna Shubat

    2017-12-01

    Full Text Available The predicted negative trends in Russian demography (falling birth rates, population decline actualize the need to strengthen measures of family and population policy. Our research purpose is to identify groups of Russian regions with similar characteristics in the family sphere using cluster analysis. The findings should make an important contribution to the field of family policy. We used hierarchical cluster analysis based on the Ward method and the Euclidean distance for segmentation of Russian regions. Clustering is based on four variables, which allowed assessing the family institution in the region. The authors used the data of Federal State Statistics Service from 2010 to 2015. Clustering and profiling of each segment has allowed forming a model of Russian regions depending on the features of the family institution in these regions. The authors revealed four clusters grouping regions with similar problems in the family sphere. This segmentation makes it possible to develop the most relevant family policy measures in each group of regions. Thus, the analysis has shown a high degree of differentiation of the family institution in the regions. This suggests that a unified approach to population problems’ solving is far from being effective. To achieve greater results in the implementation of family policy, a differentiated approach is needed. Methods of multidimensional data classification can be successfully applied as a relevant analytical toolkit. Further research could develop the adaptation of multidimensional classification methods to the analysis of the population problems in Russian regions. In particular, the algorithms of nonparametric cluster analysis may be of relevance in future studies.

  18. Image decomposition as a tool for validating stress analysis models

    Directory of Open Access Journals (Sweden)

    Mottershead J.

    2010-06-01

    Full Text Available It is good practice to validate analytical and numerical models used in stress analysis for engineering design by comparison with measurements obtained from real components either in-service or in the laboratory. In reality, this critical step is often neglected or reduced to placing a single strain gage at the predicted hot-spot of stress. Modern techniques of optical analysis allow full-field maps of displacement, strain and, or stress to be obtained from real components with relative ease and at modest cost. However, validations continued to be performed only at predicted and, or observed hot-spots and most of the wealth of data is ignored. It is proposed that image decomposition methods, commonly employed in techniques such as fingerprinting and iris recognition, can be employed to validate stress analysis models by comparing all of the key features in the data from the experiment and the model. Image decomposition techniques such as Zernike moments and Fourier transforms have been used to decompose full-field distributions for strain generated from optical techniques such as digital image correlation and thermoelastic stress analysis as well as from analytical and numerical models by treating the strain distributions as images. The result of the decomposition is 101 to 102 image descriptors instead of the 105 or 106 pixels in the original data. As a consequence, it is relatively easy to make a statistical comparison of the image descriptors from the experiment and from the analytical/numerical model and to provide a quantitative assessment of the stress analysis.

  19. Evaluation of fatigue damage in nuclear power plants: evolution and new tools of analysis

    International Nuclear Information System (INIS)

    Cicero, R.; Corchon, F.

    2011-01-01

    This paper presents new fatigue mechanisms requiring analysis, tools developed for evaluation and the latest trends and studies that are currently working in the nuclear field, and allow proper management referring facilities the said degradation mechanism.

  20. Transportation Routing Analysis Geographic Information System -- TRAGIS, progress on improving a routing tool

    International Nuclear Information System (INIS)

    Johnson, P.E.; Lester, P.B.

    1998-05-01

    The Transportation Routing Analysis Geographic Information System (TRAGIS) model provides a useful tool to calculate and analyze transportation routes for radioactive materials within the continental US. This paper outlines some of the features available in this model

  1. Gene Ontology-Based Analysis of Zebrafish Omics Data Using the Web Tool Comparative Gene Ontology.

    Science.gov (United States)

    Ebrahimie, Esmaeil; Fruzangohar, Mario; Moussavi Nik, Seyyed Hani; Newman, Morgan

    2017-10-01

    Gene Ontology (GO) analysis is a powerful tool in systems biology, which uses a defined nomenclature to annotate genes/proteins within three categories: "Molecular Function," "Biological Process," and "Cellular Component." GO analysis can assist in revealing functional mechanisms underlying observed patterns in transcriptomic, genomic, and proteomic data. The already extensive and increasing use of zebrafish for modeling genetic and other diseases highlights the need to develop a GO analytical tool for this organism. The web tool Comparative GO was originally developed for GO analysis of bacterial data in 2013 ( www.comparativego.com ). We have now upgraded and elaborated this web tool for analysis of zebrafish genetic data using GOs and annotations from the Gene Ontology Consortium.

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

    Directory of Open Access Journals (Sweden)

    Elisa Cirillo

    2017-11-01

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

  3. Learn by Yourself: The Self-Learning Tools for Qualitative Analysis Software Packages

    Science.gov (United States)

    Freitas, Fábio; Ribeiro, Jaime; Brandão, Catarina; Reis, Luís Paulo; de Souza, Francislê Neri; Costa, António Pedro

    2017-01-01

    Computer Assisted Qualitative Data Analysis Software (CAQDAS) are tools that help researchers to develop qualitative research projects. These software packages help the users with tasks such as transcription analysis, coding and text interpretation, writing and annotation, content search and analysis, recursive abstraction, grounded theory…

  4. Modal interval analysis new tools for numerical information

    CERN Document Server

    Sainz, Miguel A; Calm, Remei; Herrero, Pau; Jorba, Lambert; Vehi, Josep

    2014-01-01

    This book presents an innovative new approach to interval analysis. Modal Interval Analysis (MIA) is an attempt to go beyond the limitations of classic intervals in terms of their structural, algebraic and logical features. The starting point of MIA is quite simple: It consists in defining a modal interval that attaches a quantifier to a classical interval and in introducing the basic relation of inclusion between modal intervals by means of the inclusion of the sets of predicates they accept. This modal approach introduces interval extensions of the real continuous functions, identifies equivalences between logical formulas and interval inclusions, and provides the semantic theorems that justify these equivalences, along with guidelines for arriving at these inclusions. Applications of these equivalences in different areas illustrate the obtained results. The book also presents a new interval object: marks, which aspire to be a new form of numerical treatment of errors in measurements and computations.

  5. Analysis of live cell images: Methods, tools and opportunities.

    Science.gov (United States)

    Nketia, Thomas A; Sailem, Heba; Rohde, Gustavo; Machiraju, Raghu; Rittscher, Jens

    2017-02-15

    Advances in optical microscopy, biosensors and cell culturing technologies have transformed live cell imaging. Thanks to these advances live cell imaging plays an increasingly important role in basic biology research as well as at all stages of drug development. Image analysis methods are needed to extract quantitative information from these vast and complex data sets. The aim of this review is to provide an overview of available image analysis methods for live cell imaging, in particular required preprocessing image segmentation, cell tracking and data visualisation methods. The potential opportunities recent advances in machine learning, especially deep learning, and computer vision provide are being discussed. This review includes overview of the different available software packages and toolkits. Copyright © 2017. Published by Elsevier Inc.

  6. PIXE analysis of cave sediments, prehispanic paintings and obsidian cutting tools from Baja California Sur caves

    International Nuclear Information System (INIS)

    Miranda, J.; Oliver, A.; Dacal, A.; Ruvalcaba, J.L.; Cruz, F.; Ortiz, M.E.; Vinas, R.

    1993-01-01

    Elemental PIXE analysis of cave sediments, minerals, pigments of the prehispanic paintings and obsidian cutting tools from caves in Baja California Sur has been carried out with a 0.7 MeV proton beam. The elements analysed in this sample set (Al to Co) provide an idea of the environment of the caves. The obsidian data analysis suggests that the human communities who made these painting used more than one obsidian source to manufacture cutting tools. (orig.)

  7. A tool for public analysis of scientific data

    Directory of Open Access Journals (Sweden)

    D Haglin

    2006-01-01

    Full Text Available The scientific method encourages sharing data with other researchers to independently verify conclusions. Currently, technical barriers impede such public scrutiny. A strategy for offering scientific data for public analysis is described. With this strategy, effectively no requirements of software installation (other than a web browser or data manipulation are imposed on other researchers to prepare for perusing the scientific data. A prototype showcasing this strategy is described.

  8. Scanning tunneling microscopy: A powerful tool for surface analysis

    International Nuclear Information System (INIS)

    Walle, G.F.A. van de; Nelissen, B.J.; Soethout, L.L.; Kempen, H. van

    1987-01-01

    The invention of the Scanning Tunneling Microscope (STM) has opened a new area of surface analysis. A description of the principle of operation is given in this paper. Also the technical problems encountered and their solution are described. Two examples demonstrating the possibilities of the STM are presented: topographic and spectroscopic measurements on a stepped Ni (111) surface and photoconductive measurements on GaAs. (orig.)

  9. TRACY: A tool for accelerator design and analysis

    International Nuclear Information System (INIS)

    Nishimura, Hiroshi.

    1988-06-01

    A simulation code TRACY has been developed for accelerator design and analysis. The code can be used for lattice design work simulation of magnet misalignments, closed orbit calculations and corrections, undulator calculations and particle tracking. TRACY has been used extensively for single particle simulations for the Advanced Light Source (ALS), a 1-2 GeV Synchrotron Radiation Source now under construction at Lawrence Berkeley Laboratory. 9 refs., 2 figs

  10. Systems analysis as a tool for optimal process strategy

    International Nuclear Information System (INIS)

    Ditterich, K.; Schneider, J.

    1975-09-01

    For the description and the optimal treatment of complex processes, the methods of Systems Analysis are used as the most promising approach in recent times. In general every process should be optimised with respect to reliability, safety, economy and environmental pollution. In this paper the complex relations between these general optimisation postulates are established in qualitative form. These general trend relations have to be quantified for every particular system studied in practice

  11. SCit: web tools for protein side chain conformation analysis

    OpenAIRE

    Gautier, R.; Camproux, A.-C.; Tufféry, P.

    2004-01-01

    SCit is a web server providing services for protein side chain conformation analysis and side chain positioning. Specific services use the dependence of the side chain conformations on the local backbone conformation, which is described using a structural alphabet that describes the conformation of fragments of four-residue length in a limited library of structural prototypes. Based on this concept, SCit uses sets of rotameric conformations dependent on the local backbone conformation of each...

  12. Development of the Expert System Domain Advisor and Analysis Tool

    Science.gov (United States)

    1991-09-01

    analysis. Typical of the current methods in use at this time is the " tarot metric". This method defines a decision rule whose output is whether to go...B - TAROT METRIC B. ::TTRODUCTION The system chart of ESEM, Figure 1, shows the following three risk-based decision points: i. At prolect initiation...34 decisions. B-I 201 PRELIMINARY T" B-I. Evaluais Factan for ES Deyelopsineg FACTORS POSSIBLE VALUE RATINGS TAROT metric (overall suitability) Poor, Fair

  13. High-Performance Integrated Virtual Environment (HIVE) Tools and Applications for Big Data Analysis.

    Science.gov (United States)

    Simonyan, Vahan; Mazumder, Raja

    2014-09-30

    The High-performance Integrated Virtual Environment (HIVE) is a high-throughput cloud-based infrastructure developed for the storage and analysis of genomic and associated biological data. HIVE consists of a web-accessible interface for authorized users to deposit, retrieve, share, annotate, compute and visualize Next-generation Sequencing (NGS) data in a scalable and highly efficient fashion. The platform contains a distributed storage library and a distributed computational powerhouse linked seamlessly. Resources available through the interface include algorithms, tools and applications developed exclusively for the HIVE platform, as well as commonly used external tools adapted to operate within the parallel architecture of the system. HIVE is composed of a flexible infrastructure, which allows for simple implementation of new algorithms and tools. Currently, available HIVE tools include sequence alignment and nucleotide variation profiling tools, metagenomic analyzers, phylogenetic tree-building tools using NGS data, clone discovery algorithms, and recombination analysis algorithms. In addition to tools, HIVE also provides knowledgebases that can be used in conjunction with the tools for NGS sequence and metadata analysis.

  14. High-Performance Integrated Virtual Environment (HIVE Tools and Applications for Big Data Analysis

    Directory of Open Access Journals (Sweden)

    Vahan Simonyan

    2014-09-01

    Full Text Available The High-performance Integrated Virtual Environment (HIVE is a high-throughput cloud-based infrastructure developed for the storage and analysis of genomic and associated biological data. HIVE consists of a web-accessible interface for authorized users to deposit, retrieve, share, annotate, compute and visualize Next-generation Sequencing (NGS data in a scalable and highly efficient fashion. The platform contains a distributed storage library and a distributed computational powerhouse linked seamlessly. Resources available through the interface include algorithms, tools and applications developed exclusively for the HIVE platform, as well as commonly used external tools adapted to operate within the parallel architecture of the system. HIVE is composed of a flexible infrastructure, which allows for simple implementation of new algorithms and tools. Currently, available HIVE tools include sequence alignment and nucleotide variation profiling tools, metagenomic analyzers, phylogenetic tree-building tools using NGS data, clone discovery algorithms, and recombination analysis algorithms. In addition to tools, HIVE also provides knowledgebases that can be used in conjunction with the tools for NGS sequence and metadata analysis.

  15. SBML-SAT: a systems biology markup language (SBML) based sensitivity analysis tool.

    Science.gov (United States)

    Zi, Zhike; Zheng, Yanan; Rundell, Ann E; Klipp, Edda

    2008-08-15

    It has long been recognized that sensitivity analysis plays a key role in modeling and analyzing cellular and biochemical processes. Systems biology markup language (SBML) has become a well-known platform for coding and sharing mathematical models of such processes. However, current SBML compatible software tools are limited in their ability to perform global sensitivity analyses of these models. This work introduces a freely downloadable, software package, SBML-SAT, which implements algorithms for simulation, steady state analysis, robustness analysis and local and global sensitivity analysis for SBML models. This software tool extends current capabilities through its execution of global sensitivity analyses using multi-parametric sensitivity analysis, partial rank correlation coefficient, SOBOL's method, and weighted average of local sensitivity analyses in addition to its ability to handle systems with discontinuous events and intuitive graphical user interface. SBML-SAT provides the community of systems biologists a new tool for the analysis of their SBML models of biochemical and cellular processes.

  16. Direct implementation of an axial-flow helium gas turbine tool in a system analysis tool for HTGRs

    International Nuclear Information System (INIS)

    Kim, Ji Hwan; No, Hee Cheon; Kim, Hyeun Min; Lim, Hong Sik

    2008-01-01

    This study concerns the development of dynamic models for a high-temperature gas-cooled reactor (HTGR) through direct implementation of a gas turbine analysis code with a transient analysis code. We have developed a streamline curvature analysis code based on the Newton-Raphson numerical application (SANA) to analyze the off-design performance of helium gas turbines under conditions of normal operation. The SANA code performs a detailed two-dimensional analysis by means of throughflow calculation with allowances for losses in axial-flow multistage compressors and turbines. To evaluate the performance in the steady-state and load transient of HTGRs, we developed GAMMA-T by implementing SANA in the transient system code, GAMMA, which is a multidimensional, multicomponent analysis tool for HTGRs. The reactor, heat exchangers, and connecting pipes were designed with a one-dimensional thermal-hydraulic model that uses the GAMMA code. We assessed GAMMA-T by comparing its results with the steady-state results of the GTHTR300 of JAEA. We concluded that the results are in good agreement, including the results of the vessel cooling bypass flow and the turbine cooling flow

  17. Thorough in silico and in vitro cDNA analysis of 21 putative BRCA1 and BRCA2 splice variants and a complex tandem duplication in BRCA2 allowing the identification of activated cryptic splice donor sites in BRCA2 exon 11.

    Science.gov (United States)

    Baert, Annelot; Machackova, Eva; Coene, Ilse; Cremin, Carol; Turner, Kristin; Portigal-Todd, Cheryl; Asrat, Marie Jill; Nuk, Jennifer; Mindlin, Allison; Young, Sean; MacMillan, Andree; Van Maerken, Tom; Trbusek, Martin; McKinnon, Wendy; Wood, Marie E; Foulkes, William D; Santamariña, Marta; de la Hoya, Miguel; Foretova, Lenka; Poppe, Bruce; Vral, Anne; Rosseel, Toon; De Leeneer, Kim; Vega, Ana; Claes, Kathleen B M

    2018-04-01

    For 21 putative BRCA1 and BRCA2 splice site variants, the concordance between mRNA analysis and predictions by in silico programs was evaluated. Aberrant splicing was confirmed for 12 alterations. In silico prediction tools were helpful to determine for which variants cDNA analysis is warranted, however, predictions for variants in the Cartegni consensus region but outside the canonical sites, were less reliable. Learning algorithms like Adaboost and Random Forest outperformed the classical tools. Further validations are warranted prior to implementation of these novel tools in clinical settings. Additionally, we report here for the first time activated cryptic donor sites in the large exon 11 of BRCA2 by evaluating the effect at the cDNA level of a novel tandem duplication (5' breakpoint in intron 4; 3' breakpoint in exon 11) and of a variant disrupting the splice donor site of exon 11 (c.6841+1G > C). Additional sites were predicted, but not activated. These sites warrant further research to increase our knowledge on cis and trans acting factors involved in the conservation of correct transcription of this large exon. This may contribute to adequate design of ASOs (antisense oligonucleotides), an emerging therapy to render cancer cells sensitive to PARP inhibitor and platinum therapies. © 2017 Wiley Periodicals, Inc.

  18. An ontological knowledge based system for selection of process monitoring and analysis tools

    DEFF Research Database (Denmark)

    Singh, Ravendra; Gernaey, Krist; Gani, Rafiqul

    2010-01-01

    monitoring and analysis tools for a wide range of operations has made their selection a difficult, time consuming and challenging task. Therefore, an efficient and systematic knowledge base coupled with an inference system is necessary to support the optimal selection of process monitoring and analysis tools......, satisfying the process and user constraints. A knowledge base consisting of the process knowledge as well as knowledge on measurement methods and tools has been developed. An ontology has been designed for knowledge representation and management. The developed knowledge base has a dual feature. On the one...... procedures has been developed to retrieve the data/information stored in the knowledge base....

  19. Second NASA Technical Interchange Meeting (TIM): Advanced Technology Lifecycle Analysis System (ATLAS) Technology Tool Box (TTB)

    Science.gov (United States)

    ONeil, D. A.; Mankins, J. C.; Christensen, C. B.; Gresham, E. C.

    2005-01-01

    The Advanced Technology Lifecycle Analysis System (ATLAS), a spreadsheet analysis tool suite, applies parametric equations for sizing and lifecycle cost estimation. Performance, operation, and programmatic data used by the equations come from a Technology Tool Box (TTB) database. In this second TTB Technical Interchange Meeting (TIM), technologists, system model developers, and architecture analysts discussed methods for modeling technology decisions in spreadsheet models, identified specific technology parameters, and defined detailed development requirements. This Conference Publication captures the consensus of the discussions and provides narrative explanations of the tool suite, the database, and applications of ATLAS within NASA s changing environment.

  20. Stakeholder analysis: a useful tool for biobank planning.

    Science.gov (United States)

    Bjugn, Roger; Casati, Bettina

    2012-06-01

    Stakeholders are individuals, groups, or organizations that are affected by or can affect a particular action undertaken by others. Biobanks relate to a number of donors, researchers, research institutions, regulatory bodies, funders, and others. These stakeholders can potentially have a strong influence upon the organization and operation of a biobank. A sound strategy for stakeholder engagement is considered essential in project management and organization theory. In this article, we review relevant stakeholder theory and demonstrate how a stakeholder analysis was undertaken in the early stage of a planned research biobank at a public hospital in Norway.

  1. Battery Simulation Tool for Worst Case Analysis and Mission Evaluations

    Directory of Open Access Journals (Sweden)

    Lefeuvre Stéphane

    2017-01-01

    The first part of this paper presents the PSpice models including their respective variable parameters at SBS and cell level. Then the second part of the paper introduces to the reader the model parameters that were chosen and identified to perform Monte Carlo Analysis simulations. The third part reflects some MCA results for a VES16 battery module. Finally the reader will see some other simulations that were performed by re-using the battery model for an another Saft battery cell type (MP XTD for a specific space application, at high temperature.

  2. SCit: web tools for protein side chain conformation analysis.

    Science.gov (United States)

    Gautier, R; Camproux, A-C; Tufféry, P

    2004-07-01

    SCit is a web server providing services for protein side chain conformation analysis and side chain positioning. Specific services use the dependence of the side chain conformations on the local backbone conformation, which is described using a structural alphabet that describes the conformation of fragments of four-residue length in a limited library of structural prototypes. Based on this concept, SCit uses sets of rotameric conformations dependent on the local backbone conformation of each protein for side chain positioning and the identification of side chains with unlikely conformations. The SCit web server is accessible at http://bioserv.rpbs.jussieu.fr/SCit.

  3. Neutron activation analysis: a powerful tool in provenance investigations

    International Nuclear Information System (INIS)

    Meloni, Sandro; Oddone, Massimo

    2002-01-01

    It is well known that neutron activation analysis (NAA), both instrumental and destructive, allows the simultaneous determination of a number of elements, mostly trace elements, with high levels of precision and accuracy. These peculiar properties of NAA are very useful when applied to provenance studies, i.e. to the identification of the origin of raw materials with which artifacts had been manufactured in ancient times. Data reduction by statistical procedures, especially multivariate analysis techniques, provides a statistical 'fingerprint' of investigated materials, both raw materials and archaeological artifacts, that, upon comparison, allows the identification of the provenance of prime matters used for artifact manufacturing. Thus information on quarries and flows exploitation in the antiquity, on technological raw materials processing, on trade routes and about the circulation of fakes, can be obtained. In the present paper two case studies are reported. The first one deals with the identification of the provenance of clay used to make ceramic materials, mostly bricks and tiles, recovered from the excavation of a Roman 'villa' in Lomello (Roman name Laumellum) and of Roman settlings in Casteggio (Roman name Clastidium). Both sites are located in the Province of Pavia in areas called Lomellina and Oltrepo respectively. The second one investigates the origin of the white marble used to build medieval arks, Carolingian age, located in the church of San Felice, now property of the University of Pavia. Experimental set-up, analytical results and data reduction procedures are presented and discussed. (author)

  4. Model for nuclear proliferation resistance analysis using decision making tools

    International Nuclear Information System (INIS)

    Ko, Won Il; Kim, Ho Dong; Yang, Myung Seung

    2003-06-01

    The nuclear proliferation risks of nuclear fuel cycles is being considered as one of the most important factors in assessing advanced and innovative nuclear systems in GEN IV and INPRO program. They have been trying to find out an appropriate and reasonable method to evaluate quantitatively several nuclear energy system alternatives. Any reasonable methodology for integrated analysis of the proliferation resistance, however, has not yet been come out at this time. In this study, several decision making methods, which have been used in the situation of multiple objectives, are described in order to see if those can be appropriately used for proliferation resistance evaluation. Especially, the AHP model for quantitatively evaluating proliferation resistance is dealt with in more detail. The theoretical principle of the method and some examples for the proliferation resistance problem are described. For more efficient applications, a simple computer program for the AHP model is developed, and the usage of the program is introduced here in detail. We hope that the program developed in this study could be useful for quantitative analysis of the proliferation resistance involving multiple conflict criteria

  5. Model for nuclear proliferation resistance analysis using decision making tools

    Energy Technology Data Exchange (ETDEWEB)

    Ko, Won Il; Kim, Ho Dong; Yang, Myung Seung

    2003-06-01

    The nuclear proliferation risks of nuclear fuel cycles is being considered as one of the most important factors in assessing advanced and innovative nuclear systems in GEN IV and INPRO program. They have been trying to find out an appropriate and reasonable method to evaluate quantitatively several nuclear energy system alternatives. Any reasonable methodology for integrated analysis of the proliferation resistance, however, has not yet been come out at this time. In this study, several decision making methods, which have been used in the situation of multiple objectives, are described in order to see if those can be appropriately used for proliferation resistance evaluation. Especially, the AHP model for quantitatively evaluating proliferation resistance is dealt with in more detail. The theoretical principle of the method and some examples for the proliferation resistance problem are described. For more efficient applications, a simple computer program for the AHP model is developed, and the usage of the program is introduced here in detail. We hope that the program developed in this study could be useful for quantitative analysis of the proliferation resistance involving multiple conflict criteria.

  6. Nested sampling as a tool for LISA data analysis

    International Nuclear Information System (INIS)

    Gair, Jonathan R; Feroz, Farhan; Graff, Philip; Hobson, Michael P; Babak, Stanislav; Petiteau, Antoine; Porter, Edward K

    2010-01-01

    Nested sampling is a technique for efficiently computing the probability of a data set under a particular hypothesis, also called the Bayesian Evidence or Marginal Likelihood, and for evaluating the posterior. MULTINEST is a multi-modal nested sampling algorithm which has been designed to efficiently explore and characterize posterior probability surfaces containing multiple secondary solutions. We have applied the MULTINEST algorithm to a number of problems in gravitational wave data analysis. In this article, we describe the algorithm and present results for several applications of the algorithm to analysis of mock LISA data. We summarise recently published results for a test case in which we searched for two non-spinning black hole binary merger signals in simulated LISA data. We also describe results obtained with MULTINEST in the most recent round of the Mock LISA Data Challenge (MLDC), in which the algorithm was used to search for and characterise both spinning supermassive black hole binary inspirals and bursts from cosmic string cusps. In all these applications, the algorithm found the correct number of signals and efficiently recovered the posterior probability distribution. Moreover, in most cases the waveform corresponding to the best a-posteriori parameters had an overlap in excess of 99% with the true signal.

  7. Nested sampling as a tool for LISA data analysis

    Energy Technology Data Exchange (ETDEWEB)

    Gair, Jonathan R [Institute of Astronomy, Madingley Road, CB3 0HA, Cambridge (United Kingdom); Feroz, Farhan; Graff, Philip; Hobson, Michael P [Astrophysics Group, Cavendish Laboratory, JJ Thomson Avenue, Cambridge CB3 0HE (United Kingdom); Babak, Stanislav; Petiteau, Antoine [Max-Planck-Institut fuer Gravitationsphysik, Am Muehlenberg 1, 14476, Potsdam (Germany); Porter, Edward K, E-mail: jgair@ast.cam.ac.u [APC, UMR 7164, Universite Paris 7 Denis Diderot, 10, rue Alice Domon et Leonie Duquet, 75205 Paris Cedex 13 (France)

    2010-05-01

    Nested sampling is a technique for efficiently computing the probability of a data set under a particular hypothesis, also called the Bayesian Evidence or Marginal Likelihood, and for evaluating the posterior. MULTINEST is a multi-modal nested sampling algorithm which has been designed to efficiently explore and characterize posterior probability surfaces containing multiple secondary solutions. We have applied the MULTINEST algorithm to a number of problems in gravitational wave data analysis. In this article, we describe the algorithm and present results for several applications of the algorithm to analysis of mock LISA data. We summarise recently published results for a test case in which we searched for two non-spinning black hole binary merger signals in simulated LISA data. We also describe results obtained with MULTINEST in the most recent round of the Mock LISA Data Challenge (MLDC), in which the algorithm was used to search for and characterise both spinning supermassive black hole binary inspirals and bursts from cosmic string cusps. In all these applications, the algorithm found the correct number of signals and efficiently recovered the posterior probability distribution. Moreover, in most cases the waveform corresponding to the best a-posteriori parameters had an overlap in excess of 99% with the true signal.

  8. Single Molecule Cluster Analysis Identifies Signature Dynamic Conformations along the Splicing Pathway

    Science.gov (United States)

    Blanco, Mario R.; Martin, Joshua S.; Kahlscheuer, Matthew L.; Krishnan, Ramya; Abelson, John; Laederach, Alain; Walter, Nils G.

    2016-01-01

    The spliceosome is the dynamic RNA-protein machine responsible for faithfully splicing introns from precursor messenger RNAs (pre-mRNAs). Many of the dynamic processes required for the proper assembly, catalytic activation, and disassembly of the spliceosome as it acts on its pre-mRNA substrate remain poorly understood, a challenge that persists for many biomolecular machines. Here, we developed a fluorescence-based Single Molecule Cluster Analysis (SiMCAn) tool to dissect the manifold conformational dynamics of a pre-mRNA through the splicing cycle. By clustering common dynamic behaviors derived from selectively blocked splicing reactions, SiMCAn was able to identify signature conformations and dynamic behaviors of multiple ATP-dependent intermediates. In addition, it identified a conformation adopted late in splicing by a 3′ splice site mutant, invoking a mechanism for substrate proofreading. SiMCAn presents a novel framework for interpreting complex single molecule behaviors that should prove widely useful for the comprehensive analysis of a plethora of dynamic cellular machines. PMID:26414013

  9. Integrated sequence analysis pipeline provides one-stop solution for identifying disease-causing mutations.

    Science.gov (United States)

    Hu, Hao; Wienker, Thomas F; Musante, Luciana; Kalscheuer, Vera M; Kahrizi, Kimia; Najmabadi, Hossein; Ropers, H Hilger

    2014-12-01

    Next-generation sequencing has greatly accelerated the search for disease-causing defects, but even for experts the data analysis can be a major challenge. To facilitate the data processing in a clinical setting, we have developed a novel medical resequencing analysis pipeline (MERAP). MERAP assesses the quality of sequencing, and has optimized capacity for calling variants, including single-nucleotide variants, insertions and deletions, copy-number variation, and other structural variants. MERAP identifies polymorphic and known causal variants by filtering against public domain databases, and flags nonsynonymous and splice-site changes. MERAP uses a logistic model to estimate the causal likelihood of a given missense variant. MERAP considers the relevant information such as phenotype and interaction with known disease-causing genes. MERAP compares favorably with GATK, one of the widely used tools, because of its higher sensitivity for detecting indels, its easy installation, and its economical use of computational resources. Upon testing more than 1,200 individuals with mutations in known and novel disease genes, MERAP proved highly reliable, as illustrated here for five families with disease-causing variants. We believe that the clinical implementation of MERAP will expedite the diagnostic process of many disease-causing defects. © 2014 WILEY PERIODICALS, INC.

  10. FACTORIAL CORRESPONDENCES ANALYSIS – A TOOL IN TOURISM MOTIVATION RESEARCH

    Directory of Open Access Journals (Sweden)

    Ion Danut I. JUGANARU

    2016-05-01

    Full Text Available This study aims at analyzing the distribution of tourist flows in 2014, from 25 European countries, on three main categories of trip purposes, and assumes that there are differences or similarities between the tourists’ countries of residence and their trip purposes. "Purpose'' is a multidimensional concept used in marketing research, most often for understanding consumer behavior, and for identifying market segments or customer target groups, reunited in terms of similar characteristics. Being aware that the decision of choice/ purchase is based on purposes, their knowledge proves useful in designing strategies to increase the satisfaction level provided to the customer. The statistical method used in this paper is the factorial correspondences analysis. In our opinion, the identification, by this method, of the existence of differences or similarities between the tourists’ countries of residence and their trip purposes can represent a useful step in studying the tourism market and the choice/ reformulation of strategies.

  11. Standardizing Exoplanet Analysis with the Exoplanet Characterization Tool Kit (ExoCTK)

    Science.gov (United States)

    Fowler, Julia; Stevenson, Kevin B.; Lewis, Nikole K.; Fraine, Jonathan D.; Pueyo, Laurent; Bruno, Giovanni; Filippazzo, Joe; Hill, Matthew; Batalha, Natasha; Wakeford, Hannah; Bushra, Rafia

    2018-06-01

    Exoplanet characterization depends critically on analysis tools, models, and spectral libraries that are constantly under development and have no single source nor sense of unified style or methods. The complexity of spectroscopic analysis and initial time commitment required to become competitive is prohibitive to new researchers entering the field, as well as a remaining obstacle for established groups hoping to contribute in a comparable manner to their peers. As a solution, we are developing an open-source, modular data analysis package in Python and a publicly facing web interface including tools that address atmospheric characterization, transit observation planning with JWST, JWST corongraphy simulations, limb darkening, forward modeling, and data reduction, as well as libraries of stellar, planet, and opacity models. The foundation of these software tools and libraries exist within pockets of the exoplanet community, but our project will gather these seedling tools and grow a robust, uniform, and well-maintained exoplanet characterization toolkit.

  12. Isothermal reaction calorimetry as a tool for kinetic analysis

    International Nuclear Information System (INIS)

    Zogg, Andreas; Stoessel, Francis; Fischer, Ulrich; Hungerbuehler, Konrad

    2004-01-01

    Reaction calorimetry has found widespread application for thermal and kinetic analysis of chemical reactions in the context of thermal process safety as well as process development. This paper reviews the most important reaction calorimetric principles (heat-flow, heat-balance, power-compensation, and Peltier principle) and their applications in commercial or scientific devices. The discussion focuses on the different dynamic behavior of the main calorimetric principles during an isothermal reaction measurement. Examples of available reaction calorimeters are further compared considering their detection limit, time constant as well as temperature range. In a second part, different evaluation methods for the isothermally measured calorimetric data are reviewed and discussed. The methods will be compared, focusing especially on the fact that reaction calorimetric data always contains additional informations not directly related to the actual chemical reaction such as heat of mixing, heat of phase-transfer/change processes or simple measurement errors. Depending on the evaluation method applied such disturbances have a significant influence on the calculated reaction enthalpies or rate constants

  13. [Participation and creativity as tools of analysis of public policies].

    Science.gov (United States)

    Cordeiro, Joselma Cavalcanti; Villasante, Tomás Rodriguez Pietro; de Araújo, José Luiz do Amaral Correa

    2010-07-01

    In the context of current globalization, important modifications of the international relations and of the ideological, technical, and cultural components in the administration of the States are expressed by non-legitimate public action principles which account for social iniquity and the weakening of the role of the State. Regardless of its political origin or ideological orientation, the economic development plans and programs exhibit a prevailing uniformity. The challenge today implies mobilizing in local capacities with the objective of changing the quality of public action through the adoption of new development strategies able to integrate new social dimensions with other mechanisms of action. One of them, the intersectoral action, demands the structural revision of the administrative and cultural frontiers of the public and private social agents as a means of making a new tentative sociopolitical arrangement. The complexity of politics, projects and programs is taken as a methodological landmark based on the following theoretical presuppositions: integrality, social networks, and sociopraxis, constructing a participative process of knowledge to a political analysis in search of a change in the approach of the sociopolitical processes, starting from local social networks.

  14. Microplasmas for chemical analysis: analytical tools or research toys?

    International Nuclear Information System (INIS)

    Karanassios, Vassili

    2004-01-01

    An overview of the activities of the research groups that have been involved in fabrication, development and characterization of microplasmas for chemical analysis over the last few years is presented. Microplasmas covered include: miniature inductively coupled plasmas (ICPs); capacitively coupled plasmas (CCPs); microwave-induced plasmas (MIPs); a dielectric barrier discharge (DBD); microhollow cathode discharge (MCHD) or microstructure electrode (MSE) discharges, other microglow discharges (such as those formed between 'liquid' electrodes); microplasmas formed in micrometer-diameter capillary tubes for gas chromatography (GC) or high-performance liquid chromatography (HPLC) applications, and a stabilized capacitive plasma (SCP) for GC applications. Sample introduction into microplasmas, in particular, into a microplasma device (MPD), battery operation of a MPD and of a mini- in-torch vaporization (ITV) microsample introduction system for MPDs, and questions of microplasma portability for use on site (e.g., in the field) are also briefly addressed using examples of current research. To emphasize the significance of sample introduction into microplasmas, some previously unpublished results from the author's laboratory have also been included. And an overall assessment of the state-of-the-art of analytical microplasma research is provided

  15. The geomatic like a tool for biodiversity analysis in Colombia

    International Nuclear Information System (INIS)

    Galindo, G; Armenteras, D; Franco, C; Sua S and others

    2006-01-01

    Current biodiversity research recognizes geographic information and its variability in space as an essential characteristic that helps understand the relationships between the components of biological communities and their environment. The description and quantification of their spatial and temporal attributes adds important elements for their adequate management. The biological diversity convention (biological diversity convention, law 165 of 1994) reassured the importance of biodiversity and the necessity of its conservation and sustainable use and emphasized that its components should be characterized and monitored, and the data and information related with them should be maintained and organized. The biological research institute Alexander von Humboldt is the Colombian entity in charge of promoting, coordinating and undertaking research that helps in the conservation and sustainable use of biodiversity, this institution has defined the inventory of all the fauna and flora resources in the country as one of its priority research lines. Using geomatic techniques, Humboldt institute has implemented and developed technologies to capture, debug, geocode and analyze geographic data related with biodiversity (Armenteras, 2001) among others, this has helped in the development, structure and management of projects such as the ecosystems mapping of the Colombian amazonic, Andean and Orinoco ecosystems (GIS -RS), finding conservation opportunities in rural landscapes (GIS-RS) biological localities Gazetteer (GIS, databases, programming), development of models that predict and explain species distribution (GIS, database management, modeling techniques), conservation weakness (GIS-RS) and environmental indicators (GIS, geostatistical analysis)

  16. Job analysis and student assessment tool: perfusion education clinical preceptor.

    Science.gov (United States)

    Riley, Jeffrey B

    2007-09-01

    The perfusion education system centers on the cardiac surgery operating room and the perfusionist teacher who serves as a preceptor for the perfusion student. One method to improve the quality of perfusion education is to create a valid method for perfusion students to give feedback to clinical teachers. The preceptor job analysis consisted of a literature review and interviews with preceptors to list their critical tasks, critical incidents, and cognitive and behavioral competencies. Behaviorally anchored rating traits associated with the preceptors' tasks were identified. Students voted to validate the instrument items. The perfusion instructor rating instrument with a 0-4, "very weak" to "very strong" Likert rating scale was used. The five preceptor traits for student evaluation of clinical instruction (SECI) are as follows: The clinical instructor (1) encourages self-learning, (2) encourages clinical reasoning, (3) meets student's learning needs, (4) gives continuous feedback, and (5) represents a good role model. Scores from 430 student-preceptor relationships for 28 students rotating at 24 affiliate institutions with 134 clinical instructors were evaluated. The mean overall good preceptor average (GPA) was 3.45 +/- 0.76 and was skewed to the left, ranging from 0.0 to 4.0 (median = 3.8). Only 21 of the SECI relationships earned a GPA SECI are methods to provide valid information to improve the quality of a perfusion education program.

  17. Trajectory Shape Analysis and Anomaly Detection Utilizing Information Theory Tools

    Directory of Open Access Journals (Sweden)

    Yuejun Guo

    2017-06-01

    Full Text Available In this paper, we propose to improve trajectory shape analysis by explicitly considering the speed attribute of trajectory data, and to successfully achieve anomaly detection. The shape of object motion trajectory is modeled using Kernel Density Estimation (KDE, making use of both the angle attribute of the trajectory and the speed of the moving object. An unsupervised clustering algorithm, based on the Information Bottleneck (IB method, is employed for trajectory learning to obtain an adaptive number of trajectory clusters through maximizing the Mutual Information (MI between the clustering result and a feature set of the trajectory data. Furthermore, we propose to effectively enhance the performance of IB by taking into account the clustering quality in each iteration of the clustering procedure. The trajectories are determined as either abnormal (infrequently observed or normal by a measure based on Shannon entropy. Extensive tests on real-world and synthetic data show that the proposed technique behaves very well and outperforms the state-of-the-art methods.

  18. Differential Power Analysis as a digital forensic tool.

    Science.gov (United States)

    Souvignet, T; Frinken, J

    2013-07-10

    Electronic payment fraud is considered a serious international crime by Europol. An important part of this fraud comes from payment card data skimming. This type of fraud consists of an illegal acquisition of payment card details when a user is withdrawing cash at an automated teller machine (ATM) or paying at a point of sale (POS). Modern skimming devices, also known as skimmers, use secure crypto-algorithms (e.g. Advanced Encryption Standard (AES)) to protect skimmed data stored within their memory. In order to provide digital evidence in criminal cases involving skimmers, law enforcement agencies (LEAs) must retrieve the plaintext skimmed data, generally without having knowledge of the secret key. This article proposes an alternative to the current solution at the Bundeskriminalamt (BKA) to reveal the secret key. The proposed solution is non-invasive, based on Power Analysis Attack (PAA). This article first describes the structure and the behaviour of an AES skimmer, followed by the proposal of the full operational PAA process, from power measurements to attack computation. Finally, it presents results obtained in several cases, explaining the latest improvements and providing some ideas for further developments. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

  19. Integrated structural analysis tool using the linear matching method part 1 – Software development

    International Nuclear Information System (INIS)

    Ure, James; Chen, Haofeng; Tipping, David

    2014-01-01

    A number of direct methods based upon the Linear Matching Method (LMM) framework have been developed to address structural integrity issues for components subjected to cyclic thermal and mechanical load conditions. This paper presents a new integrated structural analysis tool using the LMM framework for the assessment of load carrying capacity, shakedown limit, ratchet limit and steady state cyclic response of structures. First, the development of the LMM for the evaluation of design limits in plasticity is introduced. Second, preliminary considerations for the development of the LMM into a tool which can be used on a regular basis by engineers are discussed. After the re-structuring of the LMM subroutines for multiple central processing unit (CPU) solution, the LMM software tool for the assessment of design limits in plasticity is implemented by developing an Abaqus CAE plug-in with graphical user interfaces. Further demonstration of this new LMM analysis tool including practical application and verification is presented in an accompanying paper. - Highlights: • A new structural analysis tool using the Linear Matching Method (LMM) is developed. • The software tool is able to evaluate the design limits in plasticity. • Able to assess limit load, shakedown, ratchet limit and steady state cyclic response. • Re-structuring of the LMM subroutines for multiple CPU solution is conducted. • The software tool is implemented by developing an Abaqus CAE plug-in with GUI

  20. Finite element analysis of cutting tools prior to fracture in hard turning operations

    International Nuclear Information System (INIS)

    Cakir, M. Cemal; I Sik, Yahya

    2005-01-01

    In this work cutting FEA of cutting tools prior to fracture is investigated. Fracture is the catastrophic end of the cutting edge that should be avoided for the cutting tool in order to have a longer tool life. This paper presents finite element modelling of a cutting tool just before its fracture. The data used in FEA are gathered from a tool breakage system that detects the fracture according to the variations of the cutting forces measured by a three-dimensional force dynamometer. The workpiece material used in the experiments is cold work tool steel, AISI O1 (60 HRC) and the cutting tool material is uncoated tungsten carbide (DNMG 150608). In order to investigate the cutting tool conditions in longitudinal external turning operations prior to fracture, static and dynamic finite element analyses are conducted. After the static finite element analysis, the modal and harmonic response analyses are carried on and the dynamic behaviours of the cutting tool structure are investigated. All FE analyses were performed using a commercial finite element package ANSYS

  1. Galaxy tools and workflows for sequence analysis with applications in molecular plant pathology.

    Science.gov (United States)

    Cock, Peter J A; Grüning, Björn A; Paszkiewicz, Konrad; Pritchard, Leighton

    2013-01-01

    The Galaxy Project offers the popular web browser-based platform Galaxy for running bioinformatics tools and constructing simple workflows. Here, we present a broad collection of additional Galaxy tools for large scale analysis of gene and protein sequences. The motivating research theme is the identification of specific genes of interest in a range of non-model organisms, and our central example is the identification and prediction of "effector" proteins produced by plant pathogens in order to manipulate their host plant. This functional annotation of a pathogen's predicted capacity for virulence is a key step in translating sequence data into potential applications in plant pathology. This collection includes novel tools, and widely-used third-party tools such as NCBI BLAST+ wrapped for use within Galaxy. Individual bioinformatics software tools are typically available separately as standalone packages, or in online browser-based form. The Galaxy framework enables the user to combine these and other tools to automate organism scale analyses as workflows, without demanding familiarity with command line tools and scripting. Workflows created using Galaxy can be saved and are reusable, so may be distributed within and between research groups, facilitating the construction of a set of standardised, reusable bioinformatic protocols. The Galaxy tools and workflows described in this manuscript are open source and freely available from the Galaxy Tool Shed (http://usegalaxy.org/toolshed or http://toolshed.g2.bx.psu.edu).

  2. The Tracking Meteogram, an AWIPS II Tool for Time-Series Analysis

    Science.gov (United States)

    Burks, Jason Eric; Sperow, Ken

    2015-01-01

    A new tool has been developed for the National Weather Service (NWS) Advanced Weather Interactive Processing System (AWIPS) II through collaboration between NASA's Short-term Prediction Research and Transition (SPoRT) and the NWS Meteorological Development Laboratory (MDL). Referred to as the "Tracking Meteogram", the tool aids NWS forecasters in assessing meteorological parameters associated with moving phenomena. The tool aids forecasters in severe weather situations by providing valuable satellite and radar derived trends such as cloud top cooling rates, radial velocity couplets, reflectivity, and information from ground-based lightning networks. The Tracking Meteogram tool also aids in synoptic and mesoscale analysis by tracking parameters such as the deepening of surface low pressure systems, changes in surface or upper air temperature, and other properties. The tool provides a valuable new functionality and demonstrates the flexibility and extensibility of the NWS AWIPS II architecture. In 2014, the operational impact of the tool was formally evaluated through participation in the NOAA/NWS Operations Proving Ground (OPG), a risk reduction activity to assess performance and operational impact of new forecasting concepts, tools, and applications. Performance of the Tracking Meteogram Tool during the OPG assessment confirmed that it will be a valuable asset to the operational forecasters. This presentation reviews development of the Tracking Meteogram tool, performance and feedback acquired during the OPG activity, and future goals for continued support and extension to other application areas.

  3. Identification of five novel FBN1 mutations by non-radioactive single-strand conformation analysis

    Energy Technology Data Exchange (ETDEWEB)

    Liu, W.; Qian, C.; Comeau, K.; Francke, U. [Stanford Univ. Medical Center, Stanford, CA (United States)

    1994-09-01

    Marfan syndrome (MFS), one of the most common genetic disorders of connective tissue, is characterized by variable manifestations in skeletal, cardiovascular and ocular systems. Mutations in the fibrillin gene on chromosome 15 (FBN1) have been shown to cause MFS. To examine the relationship between FBN1 gene mutations, fibrillin protein function and MFS phenotypes, we screened for alternations in the fibrillin coding sequence in fibroblast derived cDNA from MFS patients. To date, abnormally migrating bands in more than 20 unrelated MFS patients have been identified by using non-radioactive single-strand conformation analysis and silver staining. Five altered bands have been directly sequenced. Two missense mutations and three splice site mutations have been identified. Both missense mutations substitute another amino acid for a cysteine residue (C1402W and C1672R) in EGF-like motifs of the fibrillin polypeptide chain. The two splice site mutations are at nucleotide positions 6994+1 (G{yields}A), and 7205-2 (A{yields}G) and result in in-frame skipping of exon 56 and 58, respectively. Skipping of exon 56 occurs in 50% of mutant transcripts. Use of a cryptic splice site 51 bp upstream of the normal donor site results in half of the mutant transcripts containing part of exon 56. Both products contain in-frame deletions. Another splice site mutation, identified by exon screening from patient genomic DNA using intron primers, is at nucleotide position 2293+2 (T{yields}A), but the predicted exon skipping has not been detected at the RT-PCR level. This may be due to instability of the mutant transcript. Including the mutations reported here, a total of 8 out of 36 published FBN1 gene mutations involve exon skipping. It may be inferred that FBN1 exon skipping plays an important pathogenic role in MFS.

  4. Development of a User Interface for a Regression Analysis Software Tool

    Science.gov (United States)

    Ulbrich, Norbert Manfred; Volden, Thomas R.

    2010-01-01

    An easy-to -use user interface was implemented in a highly automated regression analysis tool. The user interface was developed from the start to run on computers that use the Windows, Macintosh, Linux, or UNIX operating system. Many user interface features were specifically designed such that a novice or inexperienced user can apply the regression analysis tool with confidence. Therefore, the user interface s design minimizes interactive input from the user. In addition, reasonable default combinations are assigned to those analysis settings that influence the outcome of the regression analysis. These default combinations will lead to a successful regression analysis result for most experimental data sets. The user interface comes in two versions. The text user interface version is used for the ongoing development of the regression analysis tool. The official release of the regression analysis tool, on the other hand, has a graphical user interface that is more efficient to use. This graphical user interface displays all input file names, output file names, and analysis settings for a specific software application mode on a single screen which makes it easier to generate reliable analysis results and to perform input parameter studies. An object-oriented approach was used for the development of the graphical user interface. This choice keeps future software maintenance costs to a reasonable limit. Examples of both the text user interface and graphical user interface are discussed in order to illustrate the user interface s overall design approach.

  5. Strengthened IAEA Safeguards-Imagery Analysis: Geospatial Tools for Nonproliferation Analysis

    Energy Technology Data Exchange (ETDEWEB)

    Pabian, Frank V [Los Alamos National Laboratory

    2012-08-14

    This slide presentation focuses on the growing role and importance of imagery analysis for IAEA safeguards applications and how commercial satellite imagery, together with the newly available geospatial tools, can be used to promote 'all-source synergy.' As additional sources of openly available information, satellite imagery in conjunction with the geospatial tools can be used to significantly augment and enhance existing information gathering techniques, procedures, and analyses in the remote detection and assessment of nonproliferation relevant activities, facilities, and programs. Foremost of the geospatial tools are the 'Digital Virtual Globes' (i.e., GoogleEarth, Virtual Earth, etc.) that are far better than previously used simple 2-D plan-view line drawings for visualization of known and suspected facilities of interest which can be critical to: (1) Site familiarization and true geospatial context awareness; (2) Pre-inspection planning; (3) Onsite orientation and navigation; (4) Post-inspection reporting; (5) Site monitoring over time for changes; (6) Verification of states site declarations and for input to State Evaluation reports; and (7) A common basis for discussions among all interested parties (Member States). Additionally, as an 'open-source', such virtual globes can also provide a new, essentially free, means to conduct broad area search for undeclared nuclear sites and activities - either alleged through open source leads; identified on internet BLOGS and WIKI Layers, with input from a 'free' cadre of global browsers and/or by knowledgeable local citizens (a.k.a.: 'crowdsourcing'), that can include ground photos and maps; or by other initiatives based on existing information and in-house country knowledge. They also provide a means to acquire ground photography taken by locals, hobbyists, and tourists of the surrounding locales that can be useful in identifying and discriminating between relevant

  6. CyNC - towards a General Tool for Performance Analysis of Complex Distributed Real Time Systems

    DEFF Research Database (Denmark)

    Schiøler, Henrik; Jessen, Jan Jakob; Nielsen, Jens F. Dalsgaard

    2005-01-01

    The paper addresses the current state and the ongoing activities of a tool for performance analysis of complex real time systems. The tool named CyNC is based on network calculus allowing for the computation of backlogs and delays in a system from specified lower and upper bounds of external...... workflow and computational resources. The current version of the tool implements an extension to previous work in that it allows for general workflow and resource bounds and provides optimal solutions even to systems with cyclic dependencies. Despite the virtues of the current tool, improvements...... and extensions still remain, which are in focus of ongoing activities. Improvements include accounting for phase information to improve bounds, whereas the tool awaits extension to include flow control models, which both depend on the possibility of accounting for propagation delay. Since the current version...

  7. [Analysis of USH2A gene mutation in a Chinese family affected with Usher syndrome].

    Science.gov (United States)

    Li, Pengcheng; Liu, Fei; Zhang, Mingchang; Wang, Qiufen; Liu, Mugen

    2015-08-01

    To investigate the disease-causing mutation in a Chinese family affected with Usher syndrome type II. All of the 11 members from the family underwent comprehensive ophthalmologic examination and hearing test, and their genomic DNA were isolated from venous leukocytes. PCR and direct sequencing of USH2A gene were performed for the proband. Wild type and mutant type minigene vectors containing exon 42, intron 42 and exon 43 of the USH2A gene were constructed and transfected into Hela cells by lipofectamine reagent. Reverse transcription (RT)-PCR was carried out to verify the splicing of the minigenes. Pedigree analysis and clinical diagnosis indicated that the patients have suffered from autosomal recessive Usher syndrome type II. DNA sequencing has detected a homozygous c.8559-2A>G mutation of the USH2A gene in the proband, which has co-segregated with the disease in the family. The mutation has affected a conserved splice site in intron 42, which has led to inactivation of the splice site. Minigene experiment has confirmed the retaining of intron 42 in mature mRNA. The c.8559-2A>G mutation in the USH2A gene probably underlies the Usher syndrome type II in this family. The splice site mutation has resulted in abnormal splicing of USH2A pre-mRNA.

  8. RDNAnalyzer: A tool for DNA secondary structure prediction and sequence analysis.

    Science.gov (United States)

    Afzal, Muhammad; Shahid, Ahmad Ali; Shehzadi, Abida; Nadeem, Shahid; Husnain, Tayyab

    2012-01-01

    RDNAnalyzer is an innovative computer based tool designed for DNA secondary structure prediction and sequence analysis. It can randomly generate the DNA sequence or user can upload the sequences of their own interest in RAW format. It uses and extends the Nussinov dynamic programming algorithm and has various application for the sequence analysis. It predicts the DNA secondary structure and base pairings. It also provides the tools for routinely performed sequence analysis by the biological scientists such as DNA replication, reverse compliment generation, transcription, translation, sequence specific information as total number of nucleotide bases, ATGC base contents along with their respective percentages and sequence cleaner. RDNAnalyzer is a unique tool developed in Microsoft Visual Studio 2008 using Microsoft Visual C# and Windows Presentation Foundation and provides user friendly environment for sequence analysis. It is freely available. http://www.cemb.edu.pk/sw.html RDNAnalyzer - Random DNA Analyser, GUI - Graphical user interface, XAML - Extensible Application Markup Language.

  9. A software tool for design of process monitoring and analysis systems

    DEFF Research Database (Denmark)

    Singh, Ravendra; Gernaey, Krist; Gani, Rafiqul

    2009-01-01

    A well designed process monitoring and analysis system is necessary to consistently achieve any predefined end product quality. Systematic computer aided methods and tools provide the means to design the necessary process monitoring and analysis systems and/or to validate any existing monitoring...... and analysis system. A software to achieve this has been developed. Two developed supporting tools for the design, a knowledge base (consisting of the process knowledge as well as the knowledge on measurement methods & tools) and a model library (consisting of the process operational models) have been extended...... rigorously and integrated with the user interface, which made the software more generic and applicable to a wide range of problems. The software for the design of a process monitoring and analysis system is presented and illustrated with a tablet manufacturing process example....

  10. On the blind use of statistical tools in the analysis of globular cluster stars

    Science.gov (United States)

    D'Antona, Francesca; Caloi, Vittoria; Tailo, Marco

    2018-04-01

    As with most data analysis methods, the Bayesian method must be handled with care. We show that its application to determine stellar evolution parameters within globular clusters can lead to paradoxical results if used without the necessary precautions. This is a cautionary tale on the use of statistical tools for big data analysis.

  11. Conception of a PWR simulator as a tool for safety analysis

    International Nuclear Information System (INIS)

    Lanore, J.M.; Bernard, P.; Romeyer Dherbey, J.; Bonnet, C.; Quilchini, P.

    1982-09-01

    A simulator can be a very useful tool for safety analysis to study accident sequences involving malfunctions of the systems and operator interventions. The main characteristics of the simulator SALAMANDRE (description of the systems, physical models, programming organization, control desk) have then been selected according tot he objectives of safety analysis

  12. The VI-Suite: a set of environmental analysis tools with geospatial data applications

    NARCIS (Netherlands)

    Southall, Ryan; Biljecki, F.

    2017-01-01

    Background: The VI-Suite is a free and open-source addon for the 3D content creation application Blender, developed primarily as a tool for the contextual and performative analysis of buildings. Its functionality has grown from simple, static lighting analysis to fully parametric lighting,

  13. Transana Video Analysis Software as a Tool for Consultation: Applications to Improving PTA Meeting Leadership

    Science.gov (United States)

    Rush, Craig

    2012-01-01

    The chief aim of this article is to illustrate the potential of using Transana, a qualitative video analysis tool, for effective and efficient school-based consultation. In this illustrative study, the Transana program facilitated analysis of excerpts of video from a representative sample of Parent Teacher Association (PTA) meetings over the…

  14. A structured approach to forensic study of explosions: The TNO Inverse Explosion Analysis tool

    NARCIS (Netherlands)

    Voort, M.M. van der; Wees, R.M.M. van; Brouwer, S.D.; Jagt-Deutekom, M.J. van der; Verreault, J.

    2015-01-01

    Forensic analysis of explosions consists of determining the point of origin, the explosive substance involved, and the charge mass. Within the EU FP7 project Hyperion, TNO developed the Inverse Explosion Analysis (TNO-IEA) tool to estimate the charge mass and point of origin based on observed damage

  15. Tool for Turbine Engine Closed-Loop Transient Analysis (TTECTrA) Users' Guide

    Science.gov (United States)

    Csank, Jeffrey T.; Zinnecker, Alicia M.

    2014-01-01

    The tool for turbine engine closed-loop transient analysis (TTECTrA) is a semi-automated control design tool for subsonic aircraft engine simulations. At a specific flight condition, TTECTrA produces a basic controller designed to meet user-defined goals and containing only the fundamental limiters that affect the transient performance of the engine. The purpose of this tool is to provide the user a preliminary estimate of the transient performance of an engine model without the need to design a full nonlinear controller.

  16. A Modeling approach for analysis and improvement of spindle-holder-tool assembly dynamics

    OpenAIRE

    Budak, Erhan; Ertürk, A.; Erturk, A.; Özgüven, H. N.; Ozguven, H. N.

    2006-01-01

    The most important information required for chatter stability analysis is the dynamics of the involved structures, i.e. the frequency response functions (FRFs) which are usually determined experimentally. In this study, the tool point FRF of a spindle-holder-tool assembly is analytically determined by using the receptance coupling and structural modification techniques. Timoshenko’s beam model is used for increased accuracy. The spindle is also modeled analytically with elastic supports repre...

  17. HAWCStab2 with super element foundations: A new tool for frequency analysis of offshore wind turbines

    DEFF Research Database (Denmark)

    Henriksen, Lars Christian; Hansen, Anders Melchior; Kragh, Knud Abildgaard

    2013-01-01

    HAWCStab2 is a linear frequency domain aero-elastic tool, developed by DTU Wind Energy, suitable for frequency and stability analysis of horizontal axis 3 bladed wind turbines [1]. This tool has now been extended to also handle complex offshore foundation types, such as jacket structures...... and floating structures with mooring lines, using super elements calculated by the nonlinear time domain aero-elastic code HAWC2 [2,3]....

  18. The TREAT-NMD DMD Global Database: Analysis of More than 7,000 Duchenne Muscular Dystrophy Mutations

    Science.gov (United States)

    Bladen, Catherine L; Salgado, David; Monges, Soledad; Foncuberta, Maria E; Kekou, Kyriaki; Kosma, Konstantina; Dawkins, Hugh; Lamont, Leanne; Roy, Anna J; Chamova, Teodora; Guergueltcheva, Velina; Chan, Sophelia; Korngut, Lawrence; Campbell, Craig; Dai, Yi; Wang, Jen; Barišić, Nina; Brabec, Petr; Lahdetie, Jaana; Walter, Maggie C; Schreiber-Katz, Olivia; Karcagi, Veronika; Garami, Marta; Viswanathan, Venkatarman; Bayat, Farhad; Buccella, Filippo; Kimura, En; Koeks, Zaïda; van den Bergen, Janneke C; Rodrigues, Miriam; Roxburgh, Richard; Lusakowska, Anna; Kostera-Pruszczyk, Anna; Zimowski, Janusz; Santos, Rosário; Neagu, Elena; Artemieva, Svetlana; Rasic, Vedrana Milic; Vojinovic, Dina; Posada, Manuel; Bloetzer, Clemens; Jeannet, Pierre-Yves; Joncourt, Franziska; Díaz-Manera, Jordi; Gallardo, Eduard; Karaduman, A Ayşe; Topaloğlu, Haluk; El Sherif, Rasha; Stringer, Angela; Shatillo, Andriy V; Martin, Ann S; Peay, Holly L; Bellgard, Matthew I; Kirschner, Jan; Flanigan, Kevin M; Straub, Volker; Bushby, Kate; Verschuuren, Jan; Aartsma-Rus, Annemieke; Béroud, Christophe; Lochmüller, Hanns

    2015-01-01

    Analyzing the type and frequency of patient-specific mutations that give rise to Duchenne muscular dystrophy (DMD) is an invaluable tool for diagnostics, basic scientific research, trial planning, and improved clinical care. Locus-specific databases allow for the collection, organization, storage, and analysis of genetic variants of disease. Here, we describe the development and analysis of the TREAT-NMD DMD Global database (http://umd.be/TREAT_DMD/). We analyzed genetic data for 7,149 DMD mutations held within the database. A total of 5,682 large mutations were observed (80% of total mutations), of which 4,894 (86%) were deletions (1 exon or larger) and 784 (14%) were duplications (1 exon or larger). There were 1,445 small mutations (smaller than 1 exon, 20% of all mutations), of which 358 (25%) were small deletions and 132 (9%) small insertions and 199 (14%) affected the splice sites. Point mutations totalled 756 (52% of small mutations) with 726 (50%) nonsense mutations and 30 (2%) missense mutations. Finally, 22 (0.3%) mid-intronic mutations were observed. In addition, mutations were identified within the database that would potentially benefit from novel genetic therapies for DMD including stop codon read-through therapies (10% of total mutations) and exon skipping therapy (80% of deletions and 55% of total mutations). PMID:25604253

  19. Database tools for enhanced analysis of TMX-U data. Revision 1

    International Nuclear Information System (INIS)

    Stewart, M.E.; Carter, M.R.; Casper, T.A.; Meyer, W.H.; Perkins, D.E.; Whitney, D.M.

    1986-01-01

    A commercial database software package has been used to create several databases and tools that assist and enhance the ability of experimental physicists to analyze data from the Tandem Mirror Experiment-Upgrade (TMX-U) experiment. This software runs on a DEC-20 computer in M-Division's User Service Center at Lawrence Livermore National Laboratory (LLNL), where data can be analyzed offline from the main TMX-U acquisition computers. When combined with interactive data analysis programs, these tools provide the capability to do batch-style processing or interactive data analysis on the computers in the USC or the supercomputers of the National Magnetic Fusion Energy Computer Center (NMFECC) in addition to the normal processing done by the TMX-U acquisition system. One database tool provides highly reduced data for searching and correlation analysis of several diagnostic signals within a single shot or over many shots. A second database tool provides retrieval and storage of unreduced data for use in detailed analysis of one or more diagnostic signals. We will show how these database tools form the core of an evolving offline data analysis environment on the USC computers

  20. Real-Time Estimation for Cutting Tool Wear Based on Modal Analysis of Monitored Signals

    Directory of Open Access Journals (Sweden)

    Yongjiao Chi

    2018-05-01

    Full Text Available There is a growing body of literature that recognizes the importance of product safety and the quality problems during processing. The working status of cutting tools may lead to project delay and cost overrun if broken down accidentally, and tool wear is crucial to processing precision in mechanical manufacturing, therefore, this study contributes to this growing area of research by monitoring condition and estimating wear. In this research, an effective method for tool wear estimation was constructed, in which, the signal features of machining process were extracted by ensemble empirical mode decomposition (EEMD and were used to estimate the tool wear. Based on signal analysis, vibration signals that had better linear relationship with tool wearing process were decomposed, then the intrinsic mode functions (IMFs, frequency spectrums of IMFs and the features relating to amplitude changes of frequency spectrum were obtained. The trend that tool wear changes with the features was fitted by Gaussian fitting function to estimate the tool wear. Experimental investigation was used to verify the effectiveness of this method and the results illustrated the correlation between tool wear and the modal features of monitored signals.

  1. Rotorcraft Optimization Tools: Incorporating Rotorcraft Design Codes into Multi-Disciplinary Design, Analysis, and Optimization

    Science.gov (United States)

    Meyn, Larry A.

    2018-01-01

    One of the goals of NASA's Revolutionary Vertical Lift Technology Project (RVLT) is to provide validated tools for multidisciplinary design, analysis and optimization (MDAO) of vertical lift vehicles. As part of this effort, the software package, RotorCraft Optimization Tools (RCOTOOLS), is being developed to facilitate incorporating key rotorcraft conceptual design codes into optimizations using the OpenMDAO multi-disciplinary optimization framework written in Python. RCOTOOLS, also written in Python, currently supports the incorporation of the NASA Design and Analysis of RotorCraft (NDARC) vehicle sizing tool and the Comprehensive Analytical Model of Rotorcraft Aerodynamics and Dynamics II (CAMRAD II) analysis tool into OpenMDAO-driven optimizations. Both of these tools use detailed, file-based inputs and outputs, so RCOTOOLS provides software wrappers to update input files with new design variable values, execute these codes and then extract specific response variable values from the file outputs. These wrappers are designed to be flexible and easy to use. RCOTOOLS also provides several utilities to aid in optimization model development, including Graphical User Interface (GUI) tools for browsing input and output files in order to identify text strings that are used to identify specific variables as optimization input and response variables. This paper provides an overview of RCOTOOLS and its use

  2. Risk analysis tools for force protection and infrastructure/asset protection

    International Nuclear Information System (INIS)

    Jaeger, C.D.; Duggan, R.A.; Paulus, W.K.

    1998-01-01

    The Security Systems and Technology Center at Sandia National Laboratories has for many years been involved in the development and use of vulnerability assessment and risk analysis tools. In particular, two of these tools, ASSESS and JTS, have been used extensively for Department of Energy facilities. Increasingly, Sandia has been called upon to evaluate critical assets and infrastructures, support DoD force protection activities and assist in the protection of facilities from terrorist attacks using weapons of mass destruction. Sandia is involved in many different activities related to security and force protection and is expanding its capabilities by developing new risk analysis tools to support a variety of users. One tool, in the very early stages of development, is EnSURE, Engineered Surety Using the Risk Equation. EnSURE addresses all of the risk equation and integrates the many components into a single, tool-supported process to help determine the most cost-effective ways to reduce risk. This paper will briefly discuss some of these risk analysis tools within the EnSURE framework

  3. INSIGHT: an integrated scoping analysis tool for in-core fuel management of PWR

    International Nuclear Information System (INIS)

    Yamamoto, Akio; Noda, Hidefumi; Ito, Nobuaki; Maruyama, Taiji.

    1997-01-01

    An integrated software tool for scoping analysis of in-core fuel management, INSIGHT, has been developed to automate the scoping analysis and to improve the fuel cycle cost using advanced optimization techniques. INSIGHT is an interactive software tool executed on UNIX based workstations that is equipped with an X-window system. INSIGHT incorporates the GALLOP loading pattern (LP) optimization module that utilizes hybrid genetic algorithms, the PATMAKER interactive LP design module, the MCA multicycle analysis module, an integrated database, and other utilities. Two benchmark problems were analyzed to confirm the key capabilities of INSIGHT: LP optimization and multicycle analysis. The first was the single cycle LP optimization problem that included various constraints. The second one was the multicycle LP optimization problem that includes the assembly burnup limitation at rod cluster control (RCC) positions. The results for these problems showed the feasibility of INSIGHT for the practical scoping analysis, whose work almost consists of LP generation and multicycle analysis. (author)

  4. Importance Performance Analysis as a Trade Show Performance Evaluation and Benchmarking Tool

    OpenAIRE

    Tafesse, Wondwesen; Skallerud, Kåre; Korneliussen, Tor

    2010-01-01

    Author's accepted version (post-print). The purpose of this study is to introduce importance performance analysis as a trade show performance evaluation and benchmarking tool. Importance performance analysis considers exhibitors’ performance expectation and perceived performance in unison to evaluate and benchmark trade show performance. The present study uses data obtained from exhibitors of an international trade show to demonstrate how importance performance analysis can be used to eval...

  5. Special Section on "Tools and Algorithms for the Construction and Analysis of Systems"

    DEFF Research Database (Denmark)

    2006-01-01

    in the Lecture Notes in Computer Science series published by Springer. TACAS is a forum for researchers, developers and users interested in rigorously based tools for the construction and analysis of systems. The conference serves to bridge the gaps between different communities – including but not limited......This special section contains the revised and expanded versions of eight of the papers from the 10th International Conference on Tools and Algorithms for the Construction and Analysis of Systems (TACAS) held in March/April 2004 in Barcelona, Spain. The conference proceedings appeared as volume 2988...... to those devoted to formal methods, software and hardware verification, static analysis, programming languages, software engineering, real-time systems, and communications protocols – that share common interests in, and techniques for, tool development. Other more theoretical papers from the conference...

  6. MEL-IRIS: An Online Tool for Audio Analysis and Music Indexing

    Directory of Open Access Journals (Sweden)

    Dimitrios Margounakis

    2009-01-01

    Full Text Available Chroma is an important attribute of music and sound, although it has not yet been adequately defined in literature. As such, it can be used for further analysis of sound, resulting in interesting colorful representations that can be used in many tasks: indexing, classification, and retrieval. Especially in Music Information Retrieval (MIR, the visualization of the chromatic analysis can be used for comparison, pattern recognition, melodic sequence prediction, and color-based searching. MEL-IRIS is the tool which has been developed in order to analyze audio files and characterize music based on chroma. The tool implements specially designed algorithms and a unique way of visualization of the results. The tool is network-oriented and can be installed in audio servers, in order to manipulate large music collections. Several samples from world music have been tested and processed, in order to demonstrate the possible uses of such an analysis.

  7. AN ANALYSIS OF THE CAUSES OF PRODUCT DEFECTS USING QUALITY MANAGEMENT TOOLS

    Directory of Open Access Journals (Sweden)

    Katarzyna MIDOR

    2014-10-01

    Full Text Available To stay or strengthen its position on the market, a modern business needs to follow the principles of quality control in its actions. Especially important is the Zero Defects concept developed by Philip Crosby, which means flawless production. The concept consists in preventing the occurrence of defects and flaws in all production stages. To achieve that, we must, among other things, make use of quality management tools. This article presents an analysis of the reasons for the return of damaged or faulty goods in the automotive industry by means of quality management tools such as the Ishikawa diagram and Pareto analysis, which allow us to identify the causes of product defectiveness. Based on the results, preventive measures have been proposed. The actions presented in this article and the results of the analysis prove the effectiveness of the aforementioned quality management tools.

  8. Selecting Tools for Renewable Energy Analysis in Developing Countries: An Expanded Review

    Energy Technology Data Exchange (ETDEWEB)

    Irsyad, M. Indra al [School of Earth and Environmental Science, University of Queensland, Brisbane, QLD (Australia); Ministry of Energy and Mineral Resources, Jakarta (Indonesia); Halog, Anthony Basco, E-mail: a.halog@uq.edu.au [School of Earth and Environmental Science, University of Queensland, Brisbane, QLD (Australia); Nepal, Rabindra [Massey Business School, Massey University, Palmerston North (New Zealand); Koesrindartoto, Deddy P. [School of Business and Management, Institut Teknologi Bandung, Bandung (Indonesia)

    2017-12-20

    Renewable energy planners in developing countries should be cautious in using analytical tools formulated in developed countries. Traditional energy consumption, economic and demography transitions, high-income inequality, and informal economy are some characteristics of developing countries that may contradict the assumptions of mainstream, widely used analytical tools. In this study, we synthesize the debate in previous review studies on energy models for developing countries and then extend the scope of the previous studies by highlighting emerging methods of system thinking, life cycle thinking, and decision support analysis. We then discuss how these tools have been used for renewable energy analysis in developing countries and found out that not all studies are aware of the emerging critical issues in developing countries. We offer here a guidance to select the most appropriate analytical tool, mainly when dealing with energy modeling and analysis for developing countries. We also suggest potential future improvements to the analytical tool for renewable energy modeling and analysis in the developing countries.

  9. Selecting Tools for Renewable Energy Analysis in Developing Countries: An Expanded Review

    International Nuclear Information System (INIS)

    Irsyad, M. Indra al; Halog, Anthony Basco; Nepal, Rabindra; Koesrindartoto, Deddy P.

    2017-01-01

    Renewable energy planners in developing countries should be cautious in using analytical tools formulated in developed countries. Traditional energy consumption, economic and demography transitions, high-income inequality, and informal economy are some characteristics of developing countries that may contradict the assumptions of mainstream, widely used analytical tools. In this study, we synthesize the debate in previous review studies on energy models for developing countries and then extend the scope of the previous studies by highlighting emerging methods of system thinking, life cycle thinking, and decision support analysis. We then discuss how these tools have been used for renewable energy analysis in developing countries and found out that not all studies are aware of the emerging critical issues in developing countries. We offer here a guidance to select the most appropriate analytical tool, mainly when dealing with energy modeling and analysis for developing countries. We also suggest potential future improvements to the analytical tool for renewable energy modeling and analysis in the developing countries.

  10. Semantic integration of gene expression analysis tools and data sources using software connectors

    Science.gov (United States)

    2013-01-01

    Background The study and analysis of gene expression measurements is the primary focus of functional genomics. Once expression data is available, biologists are faced with the task of extracting (new) knowledge associated to the underlying biological phenomenon. Most often, in order to perform this task, biologists execute a number of analysis activities on the available gene expression dataset rather than a single analysis activity. The integration of heteregeneous tools and data sources to create an integrated analysis environment represents a challenging and error-prone task. Semantic integration enables the assignment of unambiguous meanings to data shared among different applications in an integrated environment, allowing the exchange of data in a semantically consistent and meaningful way. This work aims at developing an ontology-based methodology for the semantic integration of gene expression analysis tools and data sources. The proposed methodology relies on software connectors to support not only the access to heterogeneous data sources but also the definition of transformation rules on exchanged data. Results We have studied the different challenges involved in the integration of computer systems and the role software connectors play in this task. We have also studied a number of gene expression technologies, analysis tools and related ontologies in order to devise basic integration scenarios and propose a reference ontology for the gene expression domain. Then, we have defined a number of activities and associated guidelines to prescribe how the development of connectors should be carried out. Finally, we have applied the proposed methodology in the construction of three different integration scenarios involving the use of different tools for the analysis of different types of gene expression data. Conclusions The proposed methodology facilitates the development of connectors capable of semantically integrating different gene expression analysis tools

  11. JULIDE: a software tool for 3D reconstruction and statistical analysis of autoradiographic mouse brain sections.

    Directory of Open Access Journals (Sweden)

    Delphine Ribes

    Full Text Available In this article we introduce JULIDE, a software toolkit developed to perform the 3D reconstruction, intensity normalization, volume standardization by 3D image registration and voxel-wise statistical analysis of autoradiographs of mouse brain sections. This software tool has been developed in the open-source ITK software framework and is freely available under a GPL license. The article presents the complete image processing chain from raw data acquisition to 3D statistical group analysis. Results of the group comparison in the context of a study on spatial learning are shown as an illustration of the data that can be obtained with this tool.

  12. SMART: A Propositional Logic-Based Trade Analysis and Risk Assessment Tool for a Complex Mission

    Science.gov (United States)

    Ono, Masahiro; Nicholas, Austin; Alibay, Farah; Parrish, Joseph

    2015-01-01

    This paper introduces a new trade analysis software called the Space Mission Architecture and Risk Analysis Tool (SMART). This tool supports a high-level system trade study on a complex mission, such as a potential Mars Sample Return (MSR) mission, in an intuitive and quantitative manner. In a complex mission, a common approach to increase the probability of success is to have redundancy and prepare backups. Quantitatively evaluating the utility of adding redundancy to a system is important but not straightforward, particularly when the failure of parallel subsystems are correlated.

  13. Featureous: A Tool for Feature-Centric Analysis of Java Software

    DEFF Research Database (Denmark)

    Olszak, Andrzej; Jørgensen, Bo Nørregaard

    2010-01-01

    Feature-centric comprehension of source code is necessary for incorporating user-requested modifications during software evolution and maintenance. However, such comprehension is difficult to achieve in case of large object-oriented programs due to the size, complexity, and implicit character...... of mappings between features and source code. To support programmers in overcoming these difficulties, we present a feature-centric analysis tool, Featureous. Our tool extends the NetBeans IDE with mechanisms for efficient location of feature implementations in legacy source code, and an extensive analysis...

  14. The cumulative verification image analysis tool for offline evaluation of portal images

    International Nuclear Information System (INIS)

    Wong, John; Yan Di; Michalski, Jeff; Graham, Mary; Halverson, Karen; Harms, William; Purdy, James

    1995-01-01

    Purpose: Daily portal images acquired using electronic portal imaging devices contain important information about the setup variation of the individual patient. The data can be used to evaluate the treatment and to derive correction for the individual patient. The large volume of images also require software tools for efficient analysis. This article describes the approach of cumulative verification image analysis (CVIA) specifically designed as an offline tool to extract quantitative information from daily portal images. Methods and Materials: The user interface, image and graphics display, and algorithms of the CVIA tool have been implemented in ANSCI C using the X Window graphics standards. The tool consists of three major components: (a) definition of treatment geometry and anatomical information; (b) registration of portal images with a reference image to determine setup variation; and (c) quantitative analysis of all setup variation measurements. The CVIA tool is not automated. User interaction is required and preferred. Successful alignment of anatomies on portal images at present remains mostly dependent on clinical judgment. Predefined templates of block shapes and anatomies are used for image registration to enhance efficiency, taking advantage of the fact that much of the tool's operation is repeated in the analysis of daily portal images. Results: The CVIA tool is portable and has been implemented on workstations with different operating systems. Analysis of 20 sequential daily portal images can be completed in less than 1 h. The temporal information is used to characterize setup variation in terms of its systematic, random and time-dependent components. The cumulative information is used to derive block overlap isofrequency distributions (BOIDs), which quantify the effective coverage of the prescribed treatment area throughout the course of treatment. Finally, a set of software utilities is available to facilitate feedback of the information for

  15. Development of a Method for Tool Wear Analysis Using 3D Scanning

    Directory of Open Access Journals (Sweden)

    Hawryluk Marek

    2017-12-01

    Full Text Available The paper deals with evaluation of a 3D scanning method elaborated by the authors, by applying it to the analysis of the wear of forging tools. The 3D scanning method in the first place consists in the application of scanning to the analysis of changes in geometry of a forging tool by way of comparing the images of a worn tool with a CAD model or an image of a new tool. The method was evaluated in the context of the important measurement problems resulting from the extreme conditions present during the industrial hot forging processes. The method was used to evaluate wear of tools with an increasing wear degree, which made it possible to determine the wear characteristics in a function of the number of produced forgings. The following stage was the use it for a direct control of the quality and geometry changes of forging tools (without their disassembly by way of a direct measurement of the geometry of periodically collected forgings (indirect method based on forgings. The final part of the study points to the advantages and disadvantages of the elaborated method as well as the potential directions of its further development.

  16. Multivariate data analysis as a fast tool in evaluation of solid state phenomena

    DEFF Research Database (Denmark)

    Jørgensen, Anna Cecilia; Miroshnyk, Inna; Karjalainen, Milja

    2006-01-01

    of information generated can be overwhelming and the need for more effective data analysis tools is well recognized. The aim of this study was to investigate the use of multivariate data analysis, in particular principal component analysis (PCA), for fast analysis of solid state information. The data sets...... the molecular level interpretation of the structural changes related to the loss of water, as well as interpretation of the phenomena related to the crystallization. The critical temperatures or critical time points were identified easily using the principal component analysis. The variables (diffraction angles...... or wavenumbers) that changed could be identified by the careful interpretation of the loadings plots. The PCA approach provides an effective tool for fast screening of solid state information....

  17. Final report on LDRD project: Simulation/optimization tools for system variability analysis

    Energy Technology Data Exchange (ETDEWEB)

    R. L. Bierbaum; R. F. Billau; J. E. Campbell; K. D. Marx; R. J. Sikorski; B. M. Thompson; S. D. Wix

    1999-10-01

    >This work was conducted during FY98 (Proposal Number 98-0036) and FY99 (Proposal Number 99-0818) under the auspices of the Sandia National Laboratories Laboratory-Directed Research and Development (LDRD) program. Electrical simulation typically treats a single data point in the very large input space of component properties. For electrical simulation to reach its full potential as a design tool, it must be able to address the unavoidable variability and uncertainty in component properties. Component viability is strongly related to the design margin (and reliability) of the end product. During the course of this project, both tools and methodologies were developed to enable analysis of variability in the context of electrical simulation tools. Two avenues to link relevant tools were also developed, and the resultant toolset was applied to a major component.

  18. Mathematical support for automated geometry analysis of lathe machining of oblique peakless round-nose tools

    Science.gov (United States)

    Filippov, A. V.; Tarasov, S. Yu; Podgornyh, O. A.; Shamarin, N. N.; Filippova, E. O.

    2017-01-01

    Automatization of engineering processes requires developing relevant mathematical support and a computer software. Analysis of metal cutting kinematics and tool geometry is a necessary key task at the preproduction stage. This paper is focused on developing a procedure for determining the geometry of oblique peakless round-nose tool lathe machining with the use of vector/matrix transformations. Such an approach allows integration into modern mathematical software packages in distinction to the traditional analytic description. Such an advantage is very promising for developing automated control of the preproduction process. A kinematic criterion for the applicable tool geometry has been developed from the results of this study. The effect of tool blade inclination and curvature on the geometry-dependent process parameters was evaluated.

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

    International Nuclear Information System (INIS)

    Furutaka, Kazuyoshi

    2015-02-01

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

  20. Thermal Insulation System Analysis Tool (TISTool) User's Manual. Version 1.0.0

    Science.gov (United States)

    Johnson, Wesley; Fesmire, James; Leucht, Kurt; Demko, Jonathan

    2010-01-01

    The Thermal Insulation System Analysis Tool (TISTool) was developed starting in 2004 by Jonathan Demko and James Fesmire. The first edition was written in Excel and Visual BasIc as macros. It included the basic shapes such as a flat plate, cylinder, dished head, and sphere. The data was from several KSC tests that were already in the public literature realm as well as data from NIST and other highly respectable sources. More recently, the tool has been updated with more test data from the Cryogenics Test Laboratory and the tank shape was added. Additionally, the tool was converted to FORTRAN 95 to allow for easier distribution of the material and tool. This document reviews the user instructions for the operation of this system.