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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 588

  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 973 370

  3. cromwell cromwell Public

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

    Scala 989 358

Repositories

Showing 10 of 1295 repositories
  • accessibility_peak_gene_predictor Public
    broadinstitute/accessibility_peak_gene_predictor’s past year of commit activity
    Python 0 0 0 0 Updated Oct 2, 2024
  • lrma-aou1-panel-creation Public

    Pipelines and evaluations covering integration, phasing, and imputation of short and structural variants for the AoU Phase 1 long-reads callset.

    broadinstitute/lrma-aou1-panel-creation’s past year of commit activity
    WDL 1 0 20 1 Updated Oct 2, 2024
  • thurloe Public

    A simple service to store arbitrary key/value pairs

    broadinstitute/thurloe’s past year of commit activity
    Scala 3 BSD-3-Clause 0 0 40 Updated Oct 2, 2024
  • sam Public

    workbench identity and access management

    broadinstitute/sam’s past year of commit activity
    Scala 42 BSD-3-Clause 12 3 93 Updated Oct 2, 2024
  • Drop-seq-wdl Public
    broadinstitute/Drop-seq-wdl’s past year of commit activity
    0 0 0 0 Updated Oct 2, 2024
  • ddp-study-server Public

    Pepper Study Server

    broadinstitute/ddp-study-server’s past year of commit activity
    Java 8 BSD-3-Clause 5 1 4 Updated Oct 2, 2024
  • BEClust3D Public
    broadinstitute/BEClust3D’s past year of commit activity
    Jupyter Notebook 0 0 0 8 Updated Oct 2, 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 3 Updated Oct 2, 2024
  • tandem-repeat-catalog Public
    broadinstitute/tandem-repeat-catalog’s past year of commit activity
    Python 2 MIT 0 1 0 Updated Oct 2, 2024
  • str-analysis Public

    Scripts and utilities related to analyzing short tandem repeats (STRs).

    broadinstitute/str-analysis’s past year of commit activity
    Python 30 MIT 8 1 0 Updated Oct 2, 2024
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