Skip to content
@broadinstitute

Broad Institute

Broad Institute of MIT and Harvard

Pinned

  1. gatk gatk Public

    Official code repository for GATK versions 4 and up

    Java 1.6k 578

  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 947 366

  3. cromwell cromwell Public

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

    Scala 966 351

Repositories

Showing 10 of 1250 repositories
  • juniper Public
    Java 4 BSD-3-Clause 5 0 5 Updated Jun 12, 2024
  • palantir-workflows Public

    Utility workflows for the DSP hydro.gen team (formerly palantir)

    WDL 18 BSD-3-Clause 6 6 2 Updated Jun 12, 2024
  • gatk-sv Public

    A structural variation pipeline for short-read sequencing

    Python 160 BSD-3-Clause 71 94 22 Updated Jun 12, 2024
  • jati Public

    DSL support library based on nom.

    Rust 0 BSD-3-Clause 0 0 0 Updated Jun 12, 2024
  • azure-warp-joint-calling Public

    Exploration of Joint Calling Exomes with Cromwell on Azure using WARP Joint Calling Pipeline

    WDL 2 0 4 0 Updated Jun 12, 2024
  • ddp-angular Public

    Angular code for participant-facing pepper studies

    TypeScript 2 4 1 32 Updated Jun 12, 2024
  • flipbook Public

    A tool that lets you quickly flip through images in a local directory and record notes or answer questions about each one.

    Python 19 MIT 0 1 0 Updated Jun 12, 2024
  • monorepo Public

    Compendium of tools for the Imaging Platform

    Jupyter Notebook 5 0 7 2 Updated Jun 12, 2024
  • rawls Public

    Rawls service for DSDE

    Scala 24 BSD-3-Clause 3 0 13 Updated Jun 12, 2024
  • sam Public

    workbench identity and access management

    Scala 42 BSD-3-Clause 11 3 89 Updated Jun 12, 2024
View all repositories