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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 1.9k 624

  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 1.1k 382

  3. cromwell cromwell Public

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

    Scala 1.1k 379

Repositories

Showing 10 of 1457 repositories
  • TRExplorer Public

    An online portal for exploring tandem repeats (TRs) genome-wide.

    broadinstitute/TRExplorer’s past year of commit activity
    HTML 1 MIT 0 5 0 Updated Mar 6, 2026
  • delphy Public

    Fast, scalable, accurate and accessible Bayesian phylogenetics

    broadinstitute/delphy’s past year of commit activity
    C++ 42 MIT 4 0 0 Updated Mar 6, 2026
  • orsp-pub Public

    Public ORSP Compliance Portal

    broadinstitute/orsp-pub’s past year of commit activity
    JavaScript 3 BSD-3-Clause 0 0 25 Updated Mar 6, 2026
  • DepMap-NextGen-Public Public
    broadinstitute/DepMap-NextGen-Public’s past year of commit activity
    Python 1 0 0 1 Updated Mar 6, 2026
  • dig-dug-portal Public
    broadinstitute/dig-dug-portal’s past year of commit activity
    Vue 2 BSD-3-Clause 2 0 0 Updated Mar 6, 2026
  • gatk Public

    Official code repository for GATK versions 4 and up

    broadinstitute/gatk’s past year of commit activity
    Java 1,915 624 1,281 (8 issues need help) 149 Updated Mar 6, 2026
  • depmap-portal Public

    Code for the DepMap portal at depmap.org

    broadinstitute/depmap-portal’s past year of commit activity
    TypeScript 8 BSD-2-Clause 1 1 11 Updated Mar 6, 2026
  • str-analysis Public

    Scripts and utilities for analyzing tandem repeats (TRs).

    broadinstitute/str-analysis’s past year of commit activity
    Python 42 MIT 11 0 0 Updated Mar 6, 2026
  • gnomad-browser Public

    Explore gnomAD datasets on the web

    broadinstitute/gnomad-browser’s past year of commit activity
    TypeScript 86 MIT 49 165 (3 issues need help) 16 Updated Mar 6, 2026
  • gatk-sv Public

    A structural variation pipeline for short-read sequencing

    broadinstitute/gatk-sv’s past year of commit activity
    Python 201 BSD-3-Clause 76 97 26 Updated Mar 5, 2026
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