Showing 892 open source projects for "java-legacy"

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  • 1
    OpenVista (R)
    OpenVista(R) is the open-source version of VistA, an enterprise grade health care information system developed by the U.S. Veterans Affairs and deployed at 1,500 global facilities. OpenVista is a registered trademark of Medsphere Systems Corporation
    Downloads: 1 This Week
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  • 2
    CloudBurst is a parallel read-mapping algorithm optimized for mapping next-generation sequence data to the human genome and other reference genomes, for use in a variety of biological analyses including SNP discovery, genotyping, and personal genomics.
    Downloads: 0 This Week
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  • 3
    A bioinformatics tool for the annotation and tag-counting of next-gen Illumina Solexa datasets. TASE works with CASAVA 1.0 builds, providing annotation, tag counts and visualization in a rapid manner.
    Downloads: 0 This Week
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  • 4
    Contemplate is a bioinformatics tool for finding cis-regulatory modules (CRMs) in noncoding genomic regions using comparative sequence data.
    Downloads: 0 This Week
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  • 5
    A phologenetic supertree construction/assembly tool using triplet similarity as the objective function.
    Downloads: 0 This Week
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  • 6
    GPL-licensed Electronic Medical Record and Practice Management system for medical providers that runs in any web browser in multiple languages. It provides an XML-RPC backend and multiple import and export formats, as well as reporting and other features
    Downloads: 4 This Week
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  • 7
    The final build of this software now is distributed in R, embedded in "RedeR': an R/Bioconductor package for hierarchical and nested network analysis... more about RedeR: http://bioconductor.org/packages/2.9/bioc/html/RedeR.html
    Downloads: 0 This Week
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  • 8
    Software environment for manipulation of DNA and protein sequences in a phylogenetic context.
    Downloads: 0 This Week
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  • 9
    Java forward population genetics simulation tool similar to 'ms'
    Downloads: 0 This Week
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  • 10
    This is a multi-threaded Java program that tries to maximise CPU utilization by separating and distributing the computational part of the work from the file reading and writing part by using separate threads.
    Downloads: 0 This Week
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  • 11
    A wrapper for Apache UIMA (http://incubator.apache.org/uima/) that connects to the Open Biomedical Annotator (OBA) rest service from the National Center for Biomedical Ontology (http://www.bioontology.org/wiki/index.php/Annotator_User_Guide).
    Downloads: 0 This Week
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  • 12
    RssGsc (Rank Sum Statistics for Gene Set Collections) is a bioinformatics tool used to find meaningful gene sets using a ranked list of genes (obtained form an experiment).
    Downloads: 0 This Week
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  • 13
    Knime (http://www.knime.org) nodes for sequence bioinformatics. Sequime is an eclipse plug-in for the KNIME data mining platform, providing additional nodes for reading, processing and visualizing sequence information.
    Downloads: 0 This Week
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  • 14
    Scanner based Bioparsers
    Parsers for biological data based on scanner generators like Flex (C), Re2c(C), Jflex (Java) and Ifickle (Tcl). This scanner generators are providing easier maintainance, development and higher speed than hand written scanners. Scanner output is SQL.
    Downloads: 0 This Week
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  • 15
    This is a pipeline that is used to store an EST or Genome assembly information including reads and their alignment in a mysql database. Further more, it provides a set of scripts to mine SNPs and other statistics from the assembly.
    Downloads: 0 This Week
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  • 16
    Reference compression tools for sequence read data.
    Downloads: 0 This Week
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  • 17
    SRMA is a post-alignment micro re-aligner for next-generation high throughput sequencing data.
    Downloads: 0 This Week
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  • 18
    PhyloSort sorts phylogenetic trees by searching for user-specified subtrees that contain a monophyletic group of interest defined by operational taxonomic units.
    Downloads: 1 This Week
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  • 19
    Corra [BMC Bioinformatics 2008] is a computational framework & tools for discovery proteomics using label free LC-MS and ATAQS [BMC Bioinformatics 2011] is a computational framework & tools for validation proteomics using SRM LC-MS method.
    Downloads: 0 This Week
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  • 20
    GenoGUARD is a DNA sequence screening software that implements the best match method recommended by the federal government to detect the presence of biosecurity threats in synthetic DNA orders.
    Downloads: 0 This Week
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  • 21
    HATS (Haplotype Amplification in Tumor Sequences) is a tool that calls the amplified alleles, and thus amplified haplotype, in copy number aberration regions in next generation sequencing tumor data. The amplified haplotype may reveal gene variants.
    Downloads: 0 This Week
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  • 22
    GEAX is a Java application used to visualize and analyze cross-species gene expression microarray data.The program allows comparisons based on fold-change, p-value, quantile matching, or a combination of criteria.
    Downloads: 1 This Week
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  • 23
    gfit creates an interface between computational models and experimental data and provides tools for their analysis
    Downloads: 0 This Week
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  • 24
    TMAJ is software for Tissue MicroArrays (TMA's). Patients, specimens, blocks, slides, cores, images, and scores can all be stored and viewed. Features include advanced security, custom dynamic fields, and an image analysis program.
    Downloads: 0 This Week
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  • 25
    JCVI VICS
    VI Compute Server (VICS) is a collection of grid-enabled bioinformatics tools with HTTP (browser) and Web Services (scriptable) interfaces. JCVI VICS is licensed under the Perl Foundation Artistic License 2.0.
    Downloads: 0 This Week
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