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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 1.8k 603

  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 1k 373

  3. cromwell cromwell Public

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

    Scala 1k 362

Repositories

Showing 10 of 1378 repositories
  • rawls Public

    Rawls service for DSDE

    broadinstitute/rawls’s past year of commit activity
    Scala 25 BSD-3-Clause 4 0 5 Updated Apr 28, 2025
  • beehive Public

    Beehive is a web UI for interacting with Sherlock, DSP DevOps's deployment source-of-truth service

    broadinstitute/beehive’s past year of commit activity
    TypeScript 2 BSD-3-Clause 1 0 7 Updated Apr 28, 2025
  • bits-appengine Public

    BITS AppEngine Python Package

    broadinstitute/bits-appengine’s past year of commit activity
    Python 0 0 0 1 Updated Apr 28, 2025
  • sherlock Public

    DSP DevOps's deployment source-of-truth service

    broadinstitute/sherlock’s past year of commit activity
    Go 1 BSD-3-Clause 0 0 4 Updated Apr 28, 2025
  • mitograph Public
    broadinstitute/mitograph’s past year of commit activity
    Rust 0 0 0 0 Updated Apr 28, 2025
  • 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 23 MIT 20 29 4 Updated Apr 27, 2025
  • palantir-workflows Public

    Utility workflows for the DSP hydro.gen team (formerly palantir)

    broadinstitute/palantir-workflows’s past year of commit activity
    WDL 24 BSD-3-Clause 9 4 2 Updated Apr 27, 2025
  • tandem-repeat-explorer Public

    An online portal for exploring genome-wide TR catalogs

    broadinstitute/tandem-repeat-explorer’s past year of commit activity
    HTML 0 MIT 0 0 0 Updated Apr 27, 2025
  • BEClust3D Public
    broadinstitute/BEClust3D’s past year of commit activity
    Jupyter Notebook 0 0 0 8 Updated Apr 27, 2025
  • MultiQC Public Forked from MultiQC/MultiQC

    Aggregate results from bioinformatics analyses across many samples into a single report.

    broadinstitute/MultiQC’s past year of commit activity
    JavaScript 0 GPL-3.0 620 0 0 Updated Apr 26, 2025
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