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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 588

  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 975 369

  3. cromwell cromwell Public

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

    Scala 993 359

Repositories

Showing 10 of 1306 repositories
  • ddp-study-server Public

    Pepper Study Server

    broadinstitute/ddp-study-server’s past year of commit activity
    Java 8 BSD-3-Clause 5 1 4 Updated Oct 20, 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 25 Updated Oct 20, 2024
  • lrma-aou1-panel-creation Public

    Pipelines and evaluations covering integration, phasing, and imputation of short and structural variants for the AoU Phase 1 long-reads callset.

    broadinstitute/lrma-aou1-panel-creation’s past year of commit activity
    WDL 1 0 20 2 Updated Oct 20, 2024
  • heimdall Public
    broadinstitute/heimdall’s past year of commit activity
    Shell 0 0 0 0 Updated Oct 20, 2024
  • warp Public

    WDL Analysis Research Pipelines

    broadinstitute/warp’s past year of commit activity
    WDL 200 BSD-3-Clause 95 7 27 Updated Oct 20, 2024
  • imaging-backup-scripts Public

    Scripts to backup data for the Imaging Platform

    broadinstitute/imaging-backup-scripts’s past year of commit activity
    Shell 1 MIT 3 7 0 Updated Oct 20, 2024
  • imaging-platform-pipelines Public

    Cell Painting and other pipelines from the Imaging Platform

    broadinstitute/imaging-platform-pipelines’s past year of commit activity
    13 13 6 1 Updated Oct 20, 2024
  • profiling-resistance-mechanisms Public

    Predicting pharmacodynamic responses to cancer drugs using cell morphology

    broadinstitute/profiling-resistance-mechanisms’s past year of commit activity
    Jupyter Notebook 7 BSD-3-Clause 5 27 0 Updated Oct 19, 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 1 Updated Oct 19, 2024
  • ml4h Public
    broadinstitute/ml4h’s past year of commit activity
    Python 122 23 30 (1 issue needs help) 20 Updated Oct 19, 2024
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