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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 597

  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 1328 repositories
  • 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 1,006 BSD-3-Clause 359 745 48 Updated Dec 26, 2024
  • orsp-pub Public

    Public ORSP Compliance Portal

    broadinstitute/orsp-pub’s past year of commit activity
    JavaScript 3 BSD-3-Clause 0 0 25 Updated Dec 26, 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 5 Updated Dec 26, 2024
  • ABC-Enhancer-Gene-Prediction Public

    Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)

    broadinstitute/ABC-Enhancer-Gene-Prediction’s past year of commit activity
    Python 209 MIT 64 19 1 Updated Dec 25, 2024
  • mcl_imput Public Forked from broadinstitute/warp

    WDL Analysis Research Pipelines

    broadinstitute/mcl_imput’s past year of commit activity
    WDL 0 BSD-3-Clause 101 0 3 Updated Dec 24, 2024
  • warp Public

    WDL Analysis Research Pipelines

    broadinstitute/warp’s past year of commit activity
    WDL 206 BSD-3-Clause 98 7 20 Updated Dec 24, 2024
  • depmap-portal Public

    Code for the DepMap portal at depmap.org

    broadinstitute/depmap-portal’s past year of commit activity
    Python 7 BSD-2-Clause 1 0 6 Updated Dec 24, 2024
  • Methyl-CODEC Public
    broadinstitute/Methyl-CODEC’s past year of commit activity
    C++ 0 0 0 0 Updated Dec 24, 2024
  • 2024-09-27-python-intro-lesson Public

    Based on https://github.com/librarycarpentry/lc-python-intro/

    broadinstitute/2024-09-27-python-intro-lesson’s past year of commit activity
    HTML 0 1 0 1 Updated Dec 24, 2024
  • 2024-09-20-unix-shell-lesson Public

    Based on https://github.com/datacarpentry/shell-genomics/

    broadinstitute/2024-09-20-unix-shell-lesson’s past year of commit activity
    R 0 0 0 0 Updated Dec 24, 2024
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