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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 1.6k 581

  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 958 366

  3. cromwell cromwell Public

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

    Scala 973 355

Repositories

Showing 10 of 1264 repositories
  • single_cell_portal_core Public

    Rails/Docker application for the Broad Institute's single cell RNA-seq data portal

    broadinstitute/single_cell_portal_core’s past year of commit activity
    Ruby 60 BSD-3-Clause 25 0 0 Updated Jul 16, 2024
  • anvil_lite_cost_analysis Public
    broadinstitute/anvil_lite_cost_analysis’s past year of commit activity
    0 0 0 1 Updated Jul 16, 2024
  • warp Public

    WDL Analysis Research Pipelines

    broadinstitute/warp’s past year of commit activity
    WDL 197 BSD-3-Clause 91 9 21 Updated Jul 16, 2024
  • gatk-sv Public

    A structural variation pipeline for short-read sequencing

    broadinstitute/gatk-sv’s past year of commit activity
    Python 161 BSD-3-Clause 71 68 18 Updated Jul 16, 2024
  • submissions Public
    broadinstitute/submissions’s past year of commit activity
    Python 1 0 0 3 Updated Jul 16, 2024
  • beehive Public

    Beehive is a web UI for interacting with Sherlock, DSP DevOps's deployment source-of-truth service

    broadinstitute/beehive’s past year of commit activity
    TypeScript 2 BSD-3-Clause 1 0 12 Updated Jul 16, 2024
  • juniper Public
    broadinstitute/juniper’s past year of commit activity
    Java 4 BSD-3-Clause 5 0 4 Updated Jul 16, 2024
  • horsefish Public
    broadinstitute/horsefish’s past year of commit activity
    Python 5 BSD-3-Clause 7 0 14 Updated Jul 16, 2024
  • ddp-angular Public

    Angular code for participant-facing pepper studies

    broadinstitute/ddp-angular’s past year of commit activity
    TypeScript 2 4 1 32 Updated Jul 16, 2024
  • datarepo-helm Public

    A helm repo for Broad Data Science Platforms helm charts

    broadinstitute/datarepo-helm’s past year of commit activity
    Mustache 4 1 0 5 Updated Jul 16, 2024
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