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@broadinstitute

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 594

  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 987 369

  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 1324 repositories
  • juniper Public
    broadinstitute/juniper’s past year of commit activity
    Java 8 BSD-3-Clause 5 0 22 Updated Dec 12, 2024
  • ml4h_mgh_dcr Public

    code for ML4H-MGH DCR collaboration

    broadinstitute/ml4h_mgh_dcr’s past year of commit activity
    Python 0 0 0 0 Updated Dec 12, 2024
  • 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 0 2 Updated Dec 12, 2024
  • warp Public

    WDL Analysis Research Pipelines

    broadinstitute/warp’s past year of commit activity
    WDL 203 BSD-3-Clause 98 7 17 Updated Dec 12, 2024
  • sparklespray Public

    Easy batch submission of adhoc jobs onto GCP

    broadinstitute/sparklespray’s past year of commit activity
    Go 13 3 0 9 Updated Dec 12, 2024
  • gatk-sv Public

    A structural variation pipeline for short-read sequencing

    broadinstitute/gatk-sv’s past year of commit activity
    Python 173 BSD-3-Clause 71 74 27 Updated Dec 12, 2024
  • long-read-pipelines Public

    Long read production pipelines

    broadinstitute/long-read-pipelines’s past year of commit activity
    Jupyter Notebook 142 BSD-3-Clause 24 95 (2 issues need help) 26 Updated Dec 11, 2024
  • ml4h Public
    broadinstitute/ml4h’s past year of commit activity
    Python 124 23 30 (1 issue needs help) 21 Updated Dec 11, 2024
  • ddp-angular Public

    Angular code for participant-facing pepper studies

    broadinstitute/ddp-angular’s past year of commit activity
    TypeScript 3 4 1 33 Updated Dec 11, 2024
  • gnomad_methods Public

    Hail helper functions for the gnomAD project and Translational Genomics Group

    broadinstitute/gnomad_methods’s past year of commit activity
    Python 89 MIT 29 10 10 Updated Dec 11, 2024
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