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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 590

  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 983 368

  3. cromwell cromwell Public

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

    Scala 996 360

Repositories

Showing 10 of 1315 repositories
  • thurloe Public

    A simple service to store arbitrary key/value pairs

    broadinstitute/thurloe’s past year of commit activity
    Scala 3 BSD-3-Clause 0 0 23 Updated Nov 10, 2024
  • tensorqtl Public

    Ultrafast GPU-enabled QTL mapper

    broadinstitute/tensorqtl’s past year of commit activity
    Python 161 BSD-3-Clause 52 29 2 Updated Nov 10, 2024
  • 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 0 5 Updated Nov 9, 2024
  • 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 4 Updated Nov 9, 2024
  • rawls Public

    Rawls service for DSDE

    broadinstitute/rawls’s past year of commit activity
    Scala 26 BSD-3-Clause 4 0 20 Updated Nov 9, 2024
  • sam Public

    workbench identity and access management

    broadinstitute/sam’s past year of commit activity
    Scala 42 BSD-3-Clause 12 3 38 Updated Nov 9, 2024
  • heimdall Public
    broadinstitute/heimdall’s past year of commit activity
    Shell 0 0 0 0 Updated Nov 9, 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 72 73 21 Updated Nov 9, 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 3 Updated Nov 9, 2024
  • 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 22 MIT 20 31 (1 issue needs help) 2 Updated Nov 9, 2024
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