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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 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 990 371

  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 1330 repositories
  • taigapy Public

    Library for reading from taiga in python

    broadinstitute/taigapy’s past year of commit activity
    Python 1 1 2 3 Updated Jan 6, 2025
  • seqr Public

    web-based analysis tool for rare disease genomics

    broadinstitute/seqr’s past year of commit activity
    Python 179 AGPL-3.0 89 47 5 Updated Jan 6, 2025
  • backstage Public

    Broad Institute Engineering Portal is an Internal Developer Platform (Spotify Backstage by another name)

    broadinstitute/backstage’s past year of commit activity
    TypeScript 2 0 1 2 Updated Jan 6, 2025
  • gatk-sv Public

    A structural variation pipeline for short-read sequencing

    broadinstitute/gatk-sv’s past year of commit activity
    Python 174 BSD-3-Clause 71 74 26 Updated Jan 6, 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 37 BSD-3-Clause 22 2 2 Updated Jan 6, 2025
  • warp Public

    WDL Analysis Research Pipelines

    broadinstitute/warp’s past year of commit activity
    WDL 207 BSD-3-Clause 99 7 24 Updated Jan 6, 2025
  • gnomad-browser Public

    Explore gnomAD datasets on the web

    broadinstitute/gnomad-browser’s past year of commit activity
    TypeScript 81 MIT 45 156 (3 issues need help) 16 Updated Jan 6, 2025
  • python-sudoers Public

    Python library for parsing a Linux sudoers file

    broadinstitute/python-sudoers’s past year of commit activity
    Python 7 BSD-3-Clause 7 2 3 Updated Jan 6, 2025
  • juniper Public
    broadinstitute/juniper’s past year of commit activity
    Java 9 BSD-3-Clause 5 0 8 Updated Jan 6, 2025
  • mitograph Public
    broadinstitute/mitograph’s past year of commit activity
    Rust 0 0 0 0 Updated Jan 6, 2025
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