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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 1.6k 581

  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 959 366

  3. cromwell cromwell Public

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

    Scala 975 355

Repositories

Showing 10 of 1265 repositories
  • beast-beagle-cuda Public

    BEAST+BEAGLE compiled with NVIDIA CUDA

    broadinstitute/beast-beagle-cuda’s past year of commit activity
    Shell 10 MIT 2 1 0 Updated Jul 19, 2024
  • gatk Public

    Official code repository for GATK versions 4 and up

    broadinstitute/gatk’s past year of commit activity
  • 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 975 BSD-3-Clause 355 727 43 Updated Jul 19, 2024
  • broadinstitute/data-registry-api’s past year of commit activity
    Python 1 BSD-3-Clause 1 0 0 Updated Jul 19, 2024
  • warp Public

    WDL Analysis Research Pipelines

    broadinstitute/warp’s past year of commit activity
    WDL 198 BSD-3-Clause 91 9 24 Updated Jul 18, 2024
  • cellpainting-gallery Public

    Cell Painting Gallery

    broadinstitute/cellpainting-gallery’s past year of commit activity
    50 MIT 8 6 0 Updated Jul 18, 2024
  • single_cell_portal_core Public

    Rails/Docker application for the Broad Institute's single cell RNA-seq data portal

    broadinstitute/single_cell_portal_core’s past year of commit activity
    Ruby 60 BSD-3-Clause 25 0 2 Updated Jul 18, 2024
  • seqr Public

    web-based analysis tool for rare disease genomics

    broadinstitute/seqr’s past year of commit activity
    Python 173 AGPL-3.0 89 50 4 Updated Jul 18, 2024
  • regional_missense_constraint Public

    Code to calculate regional missense constraint

    broadinstitute/regional_missense_constraint’s past year of commit activity
    Python 11 BSD-3-Clause 1 0 2 Updated Jul 18, 2024
  • dig-aggregator-methods Public

    Monorepo of methods implemented for the Aggregator

    broadinstitute/dig-aggregator-methods’s past year of commit activity
    Python 1 BSD-3-Clause 1 0 7 Updated Jul 18, 2024