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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 591

  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 982 369

  3. cromwell cromwell Public

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

    Scala 995 360

Repositories

Showing 10 of 1315 repositories
  • 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 6 Updated Nov 6, 2024
  • epi-SHARE-seq-pipeline Public

    Epigenomics Program pipeline to analyze SHARE-seq data.

    broadinstitute/epi-SHARE-seq-pipeline’s past year of commit activity
    WDL 17 MIT 3 28 1 Updated Nov 6, 2024
  • puppet-qualys_agent Public

    Puppet module for installing and configuring the Qualys Cloud Agent

    broadinstitute/puppet-qualys_agent’s past year of commit activity
    Ruby 3 BSD-3-Clause 9 2 0 Updated Nov 6, 2024
  • seqr-helm Public

    Helm charts for the seqr project

    broadinstitute/seqr-helm’s past year of commit activity
    Python 1 BSD-3-Clause 1 0 1 Updated Nov 5, 2024
  • monorepo Public

    Compendium of tools for the Imaging Platform

    broadinstitute/monorepo’s past year of commit activity
    Python 9 1 7 2 Updated Nov 5, 2024
  • palantir-workflows Public

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

    broadinstitute/palantir-workflows’s past year of commit activity
    WDL 19 BSD-3-Clause 8 4 3 Updated Nov 5, 2024
  • gatk-sv Public

    A structural variation pipeline for short-read sequencing

    broadinstitute/gatk-sv’s past year of commit activity
    Python 171 BSD-3-Clause 71 73 21 Updated Nov 5, 2024
  • gnomad-browser Public

    Explore gnomAD datasets on the web

    broadinstitute/gnomad-browser’s past year of commit activity
    TypeScript 81 MIT 43 160 (3 issues need help) 15 Updated Nov 5, 2024
  • seqr Public

    web-based analysis tool for rare disease genomics

    broadinstitute/seqr’s past year of commit activity
    Python 176 AGPL-3.0 89 50 4 Updated Nov 5, 2024
  • jati Public

    DSL support library for Rust

    broadinstitute/jati’s past year of commit activity
    Rust 1 BSD-3-Clause 0 0 0 Updated Nov 5, 2024
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