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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 1.8k 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 993 371

  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 1334 repositories
  • 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 4 Updated Jan 23, 2025
  • 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 Jan 23, 2025
  • monorepo Public

    Compendium of tools for the Imaging Platform

    broadinstitute/monorepo’s past year of commit activity
    Python 9 BSD-3-Clause 1 9 0 Updated Jan 23, 2025
  • viral-pipelines Public

    viral-ngs: complete pipelines

    broadinstitute/viral-pipelines’s past year of commit activity
    WDL 61 28 23 17 Updated Jan 23, 2025
  • BEClust3D Public
    broadinstitute/BEClust3D’s past year of commit activity
    Jupyter Notebook 0 0 0 8 Updated Jan 23, 2025
  • dsp-appsec-infrastructure-apps Public

    This repository hosts DSP AppSec internal infrastructure apps deployed in GKE.

    broadinstitute/dsp-appsec-infrastructure-apps’s past year of commit activity
    Python 6 BSD-3-Clause 2 0 4 Updated Jan 23, 2025
  • gatk Public

    Official code repository for GATK versions 4 and up

    broadinstitute/gatk’s past year of commit activity
    Java 1,751 597 1,231 (8 issues need help) 137 Updated Jan 23, 2025
  • dig-aws Public

    Amazon Web Services support for DIG projects

    broadinstitute/dig-aws’s past year of commit activity
    Scala 0 0 0 0 Updated Jan 22, 2025
  • genetic-prevalence-estimator Public
    broadinstitute/genetic-prevalence-estimator’s past year of commit activity
    Python 1 BSD-3-Clause 0 47 (4 issues need help) 5 Updated Jan 22, 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 Jan 22, 2025
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