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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 1.7k 596

  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 993 371

  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 360

Repositories

Showing 10 of 1335 repositories
  • backstage Public

    Broad Institute Engineering Portal is an Internal Developer Platform (Spotify Backstage by another name)

    broadinstitute/backstage’s past year of commit activity
    TypeScript 2 0 1 3 Updated Jan 18, 2025
  • PTA_Analysis Public
    broadinstitute/PTA_Analysis’s past year of commit activity
    WDL 0 0 0 0 Updated Jan 18, 2025
  • cromwell Public

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

    broadinstitute/cromwell’s past year of commit activity
    Scala 1,008 BSD-3-Clause 360 745 49 Updated Jan 18, 2025
  • monorepo Public

    Compendium of tools for the Imaging Platform

    broadinstitute/monorepo’s past year of commit activity
    Python 9 BSD-3-Clause 1 9 0 Updated Jan 18, 2025
  • dig-dug-portal Public
    broadinstitute/dig-dug-portal’s past year of commit activity
    Vue 2 BSD-3-Clause 1 0 1 Updated Jan 18, 2025
  • jump-profiling-recipe Public

    Workflow for processing cpg0016-jump profiles

    broadinstitute/jump-profiling-recipe’s past year of commit activity
    Python 2 BSD-3-Clause 6 6 1 Updated Jan 17, 2025
  • gatk Public

    Official code repository for GATK versions 4 and up

    broadinstitute/gatk’s past year of commit activity
    Java 1,749 596 1,230 (8 issues need help) 136 Updated Jan 17, 2025
  • variant-curation-portal Public

    Web application for curating loss of function variants

    broadinstitute/variant-curation-portal’s past year of commit activity
    Python 4 MIT 1 47 3 Updated Jan 17, 2025
  • gatk-sv Public

    A structural variation pipeline for short-read sequencing

    broadinstitute/gatk-sv’s past year of commit activity
    Python 175 BSD-3-Clause 72 74 24 Updated Jan 17, 2025
  • ml4h Public
    broadinstitute/ml4h’s past year of commit activity
    Python 128 24 30 (1 issue needs help) 21 Updated Jan 17, 2025
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