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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 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 980 369

  3. cromwell cromwell Public

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

    Scala 994 360

Repositories

Showing 10 of 1315 repositories
  • pyqtl Public

    Collection of analysis tools for quantitative trait loci

    broadinstitute/pyqtl’s past year of commit activity
    Python 41 BSD-3-Clause 8 0 2 Updated Nov 2, 2024
  • juniper0 Public

    Preliminary Version of JUNIPER: Large-Scale Outbreak Reconstruction

    broadinstitute/juniper0’s past year of commit activity
    R 0 MIT 0 0 0 Updated Nov 3, 2024
  • juniper Public
    broadinstitute/juniper’s past year of commit activity
    Java 8 BSD-3-Clause 5 0 15 Updated Nov 2, 2024
  • Drop-seq Public

    Java tools for analyzing Drop-seq data

    broadinstitute/Drop-seq’s past year of commit activity
    Java 119 MIT 34 20 0 Updated Nov 2, 2024
  • shared-workflows Public

    GitHub Action workflows that can be shared by multiple repositories

    broadinstitute/shared-workflows’s past year of commit activity
    0 BSD-3-Clause 1 3 0 Updated Nov 2, 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 3 Updated Nov 2, 2024
  • computational-resources Public

    Computational training resources for GPP R&D

    broadinstitute/computational-resources’s past year of commit activity
    Jupyter Notebook 1 1 1 0 Updated Nov 2, 2024
  • Drop-seq-wdl Public
    broadinstitute/Drop-seq-wdl’s past year of commit activity
    0 0 0 0 Updated Nov 2, 2024
  • 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 26 Updated Nov 2, 2024
  • firecloud-orchestration Public
    broadinstitute/firecloud-orchestration’s past year of commit activity
    Scala 31 BSD-3-Clause 4 0 4 Updated Nov 2, 2024
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