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 604

  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 373

  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 361

Repositories

Showing 10 of 1369 repositories
  • ml4h Public
    broadinstitute/ml4h’s past year of commit activity
    Python 131 25 30 (1 issue needs help) 21 Updated Apr 11, 2025
  • gatk Public

    Official code repository for GATK versions 4 and up

    broadinstitute/gatk’s past year of commit activity
    Java 1,789 604 1,243 (8 issues need help) 137 Updated Apr 11, 2025
  • rawls Public

    Rawls service for DSDE

    broadinstitute/rawls’s past year of commit activity
    Scala 26 BSD-3-Clause 4 0 4 Updated Apr 11, 2025
  • depmap-omics-long-read-rna Public
    broadinstitute/depmap-omics-long-read-rna’s past year of commit activity
    Python 0 0 0 0 Updated Apr 11, 2025
  • starrynight Public

    Library and tools to process optical pooled screening datasets

    broadinstitute/starrynight’s past year of commit activity
    Python 2 BSD-3-Clause 0 29 4 Updated Apr 11, 2025
  • celldega Public

    Spatial omics analysis and visualization library

    broadinstitute/celldega’s past year of commit activity
    Jupyter Notebook 5 0 1 14 Updated Apr 11, 2025
  • seqr-helm Public

    Helm charts for the seqr project

    broadinstitute/seqr-helm’s past year of commit activity
    Python 3 BSD-3-Clause 2 0 0 Updated Apr 11, 2025
  • depmap_omics_upload Public

    Subset and upload data to taiga for DepMap data releases

    broadinstitute/depmap_omics_upload’s past year of commit activity
    Python 0 Unlicense 0 0 1 Updated Apr 11, 2025
  • bibt-containers Public

    Public Docker containers for use with Blue Team tooling.

    broadinstitute/bibt-containers’s past year of commit activity
    Python 0 0 0 0 Updated Apr 11, 2025
  • 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.

    broadinstitute/picard’s past year of commit activity
    Java 1,007 MIT 373 203 20 Updated Apr 11, 2025
View all repositories