Skip to content

@broadinstitute Broad Institute

Change the repository type filter

All

    Repositories list

    1.3k repositories

    • data-registry-api

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•1•Updated Mar 10, 2025Mar 10, 2025

    • sherlock

      Public
      DSP DevOps's deployment source-of-truth service
      golangpostgresgorm
      Go
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•10•Updated Mar 10, 2025Mar 10, 2025

    • gatk

      Public
      Official code repository for GATK versions 4 and up
      sciencebioinformaticsgenomicsgenomengssequencingdnasparkgatk
      Java
      •
      Other
      •602•1.8k•1.2k•131•Updated Mar 10, 2025Mar 10, 2025

    • ABC-Enhancer-Gene-Prediction

      Public
      Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
      Python
      •
      MIT License
      •66•216•7•0•Updated Mar 9, 2025Mar 9, 2025

    • tensorqtl

      Public
      Ultrafast GPU-enabled QTL mapper
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •53•170•39•2•Updated Mar 9, 2025Mar 9, 2025

    • palantir-workflows

      Public
      Utility workflows for the DSP hydro.gen team (formerly palantir)
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •8•23•4•3•Updated Mar 9, 2025Mar 9, 2025

    • dig-dug-portal

      Public
      Vue
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•0•Updated Mar 9, 2025Mar 9, 2025

    • broad-epi-workflows-collection

      Public
      This repo contains WDL workflows written by the Epigenomics program.
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Mar 9, 2025Mar 9, 2025

    • seqr

      Public
      web-based analysis tool for rare disease genomics
      Python
      •
      GNU Affero General Public License v3.0
      •89•185•49•4•Updated Mar 9, 2025Mar 9, 2025

    • starrynight

      Public
      Library and tools to process cell painting images
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•28•3•Updated Mar 9, 2025Mar 9, 2025

    • 2025_varchamp_snakemake

      Public
      Python
      •0•0•0•0•Updated Mar 9, 2025Mar 9, 2025

    • pyqtl

      Public
      Collection of analysis tools for quantitative trait loci
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •8•51•0•2•Updated Mar 8, 2025Mar 8, 2025

    • celldega

      Public
      Spatial omics analysis and visualization library
      Jupyter Notebook
      •
      Other
      •0•5•1•14•Updated Mar 8, 2025Mar 8, 2025

    • backstage

      Public
      Broad Institute Engineering Portal is an Internal Developer Platform (Spotify Backstage by another name)
      TypeScript
      •0•2•3•11•Updated Mar 8, 2025Mar 8, 2025

    • malaria

      Public
      R
      •
      MIT License
      •0•1•2•2•Updated Mar 8, 2025Mar 8, 2025

    • hidive

      Public
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•5•1•Updated Mar 8, 2025Mar 8, 2025

    • monorepo

      Public
      Compendium of tools for the Imaging Platform
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•10•7•0•Updated Mar 8, 2025Mar 8, 2025

    • depmap-portal

      Public
      Code for the DepMap portal at depmap.org
      Python
      •
      BSD 2-Clause "Simplified" License
      •1•7•0•13•Updated Mar 7, 2025Mar 7, 2025

    • cromwell

      Public
      Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
      dockerapplicationcloudbioinformaticsscalaexecutorhpccontainerswdlga4gh
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •359•1k•743•47•Updated Mar 7, 2025Mar 7, 2025

    • rawls

      Public
      Rawls service for DSDE
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•26•0•9•Updated Mar 7, 2025Mar 7, 2025

    • puppet-qualys_agent

      Public
      Puppet module for installing and configuring the Qualys Cloud Agent
      Ruby
      •
      BSD 3-Clause "New" or "Revised" License
      •8•3•2•0•Updated Mar 7, 2025Mar 7, 2025

    • puppet-certificates

      Public
      SSL Certificate File Management for Puppet
      Ruby
      •
      BSD 3-Clause "New" or "Revised" License
      •6•2•0•0•Updated Mar 7, 2025Mar 7, 2025

    • jati

      Public
      DSL support library for Rust
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Mar 7, 2025Mar 7, 2025

    • ml4h

      Public
      Python
      •
      Other
      •24•128•30•21•Updated Mar 7, 2025Mar 7, 2025

    • BEClust3D

      Public
      Jupyter Notebook
      •
      Other
      •0•0•0•8•Updated Mar 7, 2025Mar 7, 2025

    • warp

      Public
      WDL Analysis Research Pipelines
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •102•210•5•18•Updated Mar 7, 2025Mar 7, 2025

    • lrma-aou1-panel-creation

      Public
      Pipelines and evaluations covering integration, phasing, and imputation of short and structural variants for the AoU Phase 1 long-reads callset.
      WDL
      •0•1•22•2•Updated Mar 7, 2025Mar 7, 2025

    • juniper

      Public
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•9•0•8•Updated Mar 7, 2025Mar 7, 2025

    • pav-wdl

      Public
      Workspace for WDL implementation of PAV
      WDL
      •3•0•0•0•Updated Mar 7, 2025Mar 7, 2025

    • CCLF_TWIST

      Public
      A pipeline to compute the CN, SNV, ... on TWIST sequences from the CCLF program
      HTML
      •1•4•0•4•Updated Mar 7, 2025Mar 7, 2025