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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 1.8k 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 993 372

  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 1338 repositories
  • starrynight Public

    Library and tools to process cell painting images

    broadinstitute/starrynight’s past year of commit activity
    Python 1 BSD-3-Clause 0 0 3 Updated Feb 3, 2025
  • bits-appengine Public

    BITS AppEngine Python Package

    broadinstitute/bits-appengine’s past year of commit activity
    Python 0 0 0 1 Updated Feb 3, 2025
  • sherlock Public

    DSP DevOps's deployment source-of-truth service

    broadinstitute/sherlock’s past year of commit activity
    Go 1 BSD-3-Clause 0 0 10 Updated Feb 3, 2025
  • 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 9 Updated Feb 2, 2025
  • viral-pipelines Public

    viral-ngs: complete pipelines

    broadinstitute/viral-pipelines’s past year of commit activity
    WDL 61 28 23 16 Updated Feb 2, 2025
  • celldega Public

    Spatial omics analysis and visualization library

    broadinstitute/celldega’s past year of commit activity
    Jupyter Notebook 4 0 1 11 Updated Feb 2, 2025
  • ygramul Public

    Hierarchical knowledge graph for PIGEAN results

    broadinstitute/ygramul’s past year of commit activity
    Rust 0 BSD-3-Clause 0 0 0 Updated Feb 2, 2025
  • Drop-seq-wdl Public
    broadinstitute/Drop-seq-wdl’s past year of commit activity
    WDL 0 MIT 0 0 0 Updated Feb 2, 2025
  • tensorqtl Public

    Ultrafast GPU-enabled QTL mapper

    broadinstitute/tensorqtl’s past year of commit activity
    Python 168 BSD-3-Clause 53 35 2 Updated Feb 1, 2025
  • infercnv Public

    Inferring CNV from Single-Cell RNA-Seq

    broadinstitute/infercnv’s past year of commit activity
    R 589 170 214 4 Updated Feb 1, 2025
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