Skip to content
@broadinstitute

Broad Institute

Broad Institute of MIT and Harvard

Pinned Loading

  1. gatk gatk Public

    Official code repository for GATK versions 4 and up

    Java 1.9k 623

  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 1k 381

  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 377

Repositories

Showing 10 of 1440 repositories
  • genomeshader Public

    Visualization of biobank-scale genomic datasets.

    broadinstitute/genomeshader’s past year of commit activity
    JavaScript 4 BSD-3-Clause 0 7 (2 issues need help) 3 Updated Jan 23, 2026
  • 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 23 MIT 23 21 5 Updated Jan 23, 2026
  • 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 1 Updated Jan 23, 2026
  • seqr Public

    web-based analysis tool for rare disease genomics

    broadinstitute/seqr’s past year of commit activity
    Python 198 AGPL-3.0 92 44 7 Updated Jan 23, 2026
  • broad-nnfc-hiPSC-to-EC Public
    broadinstitute/broad-nnfc-hiPSC-to-EC’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Jan 22, 2026
  • gatk Public

    Official code repository for GATK versions 4 and up

    broadinstitute/gatk’s past year of commit activity
    Java 1,899 623 1,273 (8 issues need help) 143 Updated Jan 23, 2026
  • warp Public

    Warp Analysis Research Pipelines

    broadinstitute/warp’s past year of commit activity
    WDL 224 BSD-3-Clause 112 6 12 Updated Jan 22, 2026
  • taiga Public

    Taiga for Dataset management

    broadinstitute/taiga’s past year of commit activity
    Python 12 1 0 0 Updated Jan 22, 2026
  • gatk-sv Public

    A structural variation pipeline for short-read sequencing

    broadinstitute/gatk-sv’s past year of commit activity
    Python 201 BSD-3-Clause 76 94 30 Updated Jan 22, 2026
  • dsp-appsec-infrastructure-apps Public

    This repository hosts DSP AppSec internal infrastructure apps deployed in GKE.

    broadinstitute/dsp-appsec-infrastructure-apps’s past year of commit activity
    Python 7 BSD-3-Clause 2 0 14 Updated Jan 22, 2026
View all repositories

Top languages

Loading…

Most used topics

Loading…