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 1.8k 605

  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 377

  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 368

Repositories

Showing 10 of 1391 repositories
  • gatk Public

    Official code repository for GATK versions 4 and up

    broadinstitute/gatk’s past year of commit activity
    Java 1,814 605 1,256 (8 issues need help) 140 Updated Jun 19, 2025
  • jump_hub Public

    The one-stop-shop for Morphological Profiling and JUMP Cell-Painting

    broadinstitute/jump_hub’s past year of commit activity
    Python 6 CC0-1.0 2 7 2 Updated Jun 19, 2025
  • Drop-seq-wdl Public
    broadinstitute/Drop-seq-wdl’s past year of commit activity
    WDL 0 MIT 0 1 0 Updated Jun 19, 2025
  • dig-portal-ai Public Forked from yakaboskic/portal-ai

    Framework for applying LLMs to A2F Knowledge Portals

    broadinstitute/dig-portal-ai’s past year of commit activity
    Python 0 Apache-2.0 1 0 5 Updated Jun 19, 2025
  • python-cert_manager Public

    Python interface to the Sectigo Certificate Manager REST API

    broadinstitute/python-cert_manager’s past year of commit activity
    Python 38 BSD-3-Clause 22 2 5 Updated Jun 19, 2025
  • bits-appengine Public

    BITS AppEngine Python Package

    broadinstitute/bits-appengine’s past year of commit activity
    Python 0 0 0 5 Updated Jun 18, 2025
  • nightcafe Public
    broadinstitute/nightcafe’s past year of commit activity
    Python 0 0 0 0 Updated Jun 18, 2025
  • arret Public

    Stop overspending on Terra GCS storage

    broadinstitute/arret’s past year of commit activity
    Python 2 0 0 3 Updated Jun 19, 2025
  • depmap-portal Public

    Code for the DepMap portal at depmap.org

    broadinstitute/depmap-portal’s past year of commit activity
    Python 8 BSD-2-Clause 1 0 22 Updated Jun 18, 2025
  • pooled-cell-painting-image-processing Public
    broadinstitute/pooled-cell-painting-image-processing’s past year of commit activity
    Jupyter Notebook 5 BSD-3-Clause 4 15 1 Updated Jun 18, 2025
View all repositories