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@broadinstitute

Broad Institute

Broad Institute of MIT and Harvard

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  1. gatk gatk Public

    Official code repository for GATK versions 4 and up

    Java 1.7k 592

  2. picard picard Public

    A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

    Java 984 368

  3. cromwell cromwell Public

    Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

    Scala 997 361

Repositories

Showing 10 of 1317 repositories
  • heimdall Public
    broadinstitute/heimdall’s past year of commit activity
    Shell 0 0 0 0 Updated Nov 17, 2024
  • pyqtl Public

    Collection of analysis tools for quantitative trait loci

    broadinstitute/pyqtl’s past year of commit activity
    Python 41 BSD-3-Clause 8 0 2 Updated Nov 16, 2024
  • stp_space_ranger Public
    broadinstitute/stp_space_ranger’s past year of commit activity
    WDL 0 0 0 0 Updated Nov 16, 2024
  • seqr-loading-pipelines Public

    hail-based pipelines for annotating variant callsets and exporting them to elasticsearch

    broadinstitute/seqr-loading-pipelines’s past year of commit activity
    Python 22 MIT 20 32 (1 issue needs help) 7 Updated Nov 16, 2024
  • juniper Public
    broadinstitute/juniper’s past year of commit activity
    Java 8 BSD-3-Clause 5 0 10 Updated Nov 16, 2024
  • warp Public

    WDL Analysis Research Pipelines

    broadinstitute/warp’s past year of commit activity
    WDL 202 BSD-3-Clause 97 7 13 Updated Nov 15, 2024
  • depmap-portal Public

    Code for the DepMap portal at depmap.org

    broadinstitute/depmap-portal’s past year of commit activity
    Python 7 BSD-2-Clause 1 0 7 Updated Nov 15, 2024
  • penyu Public

    Write some RDF as Turtle

    broadinstitute/penyu’s past year of commit activity
    Rust 0 BSD-3-Clause 0 0 0 Updated Nov 15, 2024
  • dig-aggregator-methods Public

    Monorepo of methods implemented for the Aggregator

    broadinstitute/dig-aggregator-methods’s past year of commit activity
    Python 1 BSD-3-Clause 2 0 7 Updated Nov 15, 2024
  • long-read-pipelines Public

    Long read production pipelines

    broadinstitute/long-read-pipelines’s past year of commit activity
    Jupyter Notebook 142 BSD-3-Clause 25 95 (2 issues need help) 26 Updated Nov 15, 2024
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