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 596

  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 994 372

  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 359

Repositories

Showing 10 of 1340 repositories
  • VecTreeID Public

    Amplicon taxonomic identification pipeline for Neafsey Lab

    broadinstitute/VecTreeID’s past year of commit activity
    Python 1 0 0 0 Updated Feb 9, 2025
  • juniper0 Public

    Preliminary Version of JUNIPER: Large-Scale Outbreak Reconstruction

    broadinstitute/juniper0’s past year of commit activity
    R 3 MIT 0 0 0 Updated Feb 9, 2025
  • genetic-prevalence-estimator Public
    broadinstitute/genetic-prevalence-estimator’s past year of commit activity
    Python 1 BSD-3-Clause 0 45 (4 issues need help) 4 Updated Feb 9, 2025
  • BEClust3D Public
    broadinstitute/BEClust3D’s past year of commit activity
    Jupyter Notebook 0 0 0 8 Updated Feb 9, 2025
  • gnomad_methods Public

    Hail helper functions for the gnomAD project and Translational Genomics Group

    broadinstitute/gnomad_methods’s past year of commit activity
    Python 92 MIT 29 9 8 Updated Feb 9, 2025
  • cromwell Public

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

    broadinstitute/cromwell’s past year of commit activity
    Scala 1,008 BSD-3-Clause 359 744 48 Updated Feb 8, 2025
  • long-read-pipelines Public

    Long read production pipelines

    broadinstitute/long-read-pipelines’s past year of commit activity
    Jupyter Notebook 143 BSD-3-Clause 24 95 (2 issues need help) 27 Updated Feb 8, 2025
  • Drop-seq Public

    Java tools for analyzing Drop-seq data

    broadinstitute/Drop-seq’s past year of commit activity
    Java 124 MIT 35 22 0 Updated Feb 8, 2025
  • Drop-seq-wdl Public
    broadinstitute/Drop-seq-wdl’s past year of commit activity
    WDL 0 MIT 0 0 0 Updated Feb 8, 2025
  • lembic Public

    Distilling some data for CFDE

    broadinstitute/lembic’s past year of commit activity
    Rust 0 BSD-3-Clause 0 0 0 Updated Feb 8, 2025
View all repositories

Most used topics

Loading…