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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 1.8k 604

  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 361

Repositories

Showing 10 of 1369 repositories
  • beclust3d-public Public

    BEClust3D public repository

    broadinstitute/beclust3d-public’s past year of commit activity
    Python 0 0 0 0 Updated Apr 13, 2025
  • starrynight Public

    Library and tools to process optical pooled screening datasets

    broadinstitute/starrynight’s past year of commit activity
    Python 3 BSD-3-Clause 0 27 4 Updated Apr 13, 2025
  • gatk-tool-wdls Public

    Autogenerated WDLs for GATK Tools

    broadinstitute/gatk-tool-wdls’s past year of commit activity
    WDL 4 BSD-3-Clause 0 2 0 Updated Apr 13, 2025
  • monorepo Public

    Compendium of tools for the Imaging Platform

    broadinstitute/monorepo’s past year of commit activity
    Python 11 BSD-3-Clause 2 6 0 Updated Apr 13, 2025
  • gatk Public

    Official code repository for GATK versions 4 and up

    broadinstitute/gatk’s past year of commit activity
    Java 1,789 604 1,243 (8 issues need help) 139 Updated Apr 13, 2025
  • sparklespray Public

    Easy batch submission of adhoc jobs onto GCP

    broadinstitute/sparklespray’s past year of commit activity
    Go 13 3 1 9 Updated Apr 13, 2025
  • 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.

    broadinstitute/picard’s past year of commit activity
    Java 1,007 MIT 373 203 19 Updated Apr 13, 2025
  • Drop-seq Public

    Java tools for analyzing Drop-seq data

    broadinstitute/Drop-seq’s past year of commit activity
    Java 125 MIT 35 22 0 Updated Apr 13, 2025
  • 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 9 Updated Apr 13, 2025
  • jati Public

    DSL support library for Rust

    broadinstitute/jati’s past year of commit activity
    Rust 1 BSD-3-Clause 0 0 0 Updated Apr 12, 2025
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