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    • juniper

      Public
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•9•0•24•Updated Apr 25, 2026Apr 25, 2026

    • long-read-pipelines

      Public
      Long read production pipelines
      pipelineswdlvariant-calling
      pipelineswdlvariant-callingde-novo-assemblylong-reads
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •25•151•95•25•Updated Apr 25, 2026Apr 25, 2026

    • gnomad-browser

      Public
      Explore gnomAD datasets on the web
      javascriptgenomicsgnomad
      javascriptgenomicsgnomad
      TypeScript
      •
      MIT License
      •50•88•168•18•Updated Apr 25, 2026Apr 25, 2026

    • popout

      Public
      GPU-accelerated local ancestry inference at biobank scale, no reference panel required.
      Python
      •0•2•0•0•Updated Apr 25, 2026Apr 25, 2026

    • dig-job-server

      Public
      Vue
      •0•0•0•2•Updated Apr 25, 2026Apr 25, 2026

    • gatk-sv

      Public
      A structural variation pipeline for short-read sequencing
      bioinformaticsgenomicsstructural-variation
      bioinformaticsgenomicsstructural-variationstructural-variants
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •76•202•98•31•Updated Apr 25, 2026Apr 25, 2026

    • poasta

      Public
      Fast and exact gap-affine partial order alignment
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •7•68•9•4•Updated Apr 25, 2026Apr 25, 2026

    • ml4h

      Public
      Python
      •
      GNU General Public License v3.0
      •25•169•33•28•Updated Apr 25, 2026Apr 25, 2026

    • seqr

      Public
      web-based analysis tool for rare disease genomics
      Python
      •
      GNU Affero General Public License v3.0
      •94•204•47•14•Updated Apr 24, 2026Apr 24, 2026

    • depmap-portal

      Public
      Code for the DepMap portal at depmap.org
      TypeScript
      •
      BSD 2-Clause "Simplified" License
      •2•8•1•3•Updated Apr 24, 2026Apr 24, 2026

    • sherlock

      Public
      DSP DevOps's deployment source-of-truth service
      golangpostgresgorm
      golangpostgresgorm
      Go
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•27•Updated Apr 24, 2026Apr 24, 2026

    • gnomad-deployments

      Public
      kustomizations for current gnomad project kubernetes deployments
      Makefile
      •1•1•0•6•Updated Apr 24, 2026Apr 24, 2026

    • protigy-v2

      Public
      ProTIGY - Proteogenomics Toolset for Integrative Data Analysis
      R
      •
      BSD 3-Clause "New" or "Revised" License
      •0•5•7•4•Updated Apr 24, 2026Apr 24, 2026

    • exome-results-browsers

      Public
      Results browsers for case-control studies of psychiatric diseases done at the Broad Institute
      TypeScript
      •
      BSD 3-Clause "New" or "Revised" License
      •4•11•8•4•Updated Apr 24, 2026Apr 24, 2026

    • nomadic_wdl

      Public
      WDL
      •0•1•0•0•Updated Apr 24, 2026Apr 24, 2026

    • gnomad_qc

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •31•70•5•12•Updated Apr 24, 2026Apr 24, 2026

    • depmap-omics-pipelines-public

      Public
      Workflows for DepMap Omics
      WDL
      •0•0•0•0•Updated Apr 24, 2026Apr 24, 2026

    • dig-dug-portal

      Public
      Vue
      •
      BSD 3-Clause "New" or "Revised" License
      •2•2•0•0•Updated Apr 24, 2026Apr 24, 2026

    • warp

      Public
      Warp Analysis Research Pipelines
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •115•225•7•22•Updated Apr 24, 2026Apr 24, 2026

    • gatk

      Public
      Official code repository for GATK versions 4 and up
      sciencebioinformaticsspark
      sciencebioinformaticssparkgenomicsgenomengssequencingdnagatk
      Java
      •
      Other
      •624•1.9k•1.3k•147•Updated Apr 24, 2026Apr 24, 2026

    • rawls

      Public
      Rawls service for DSDE
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•26•0•4•Updated Apr 24, 2026Apr 24, 2026

    • gnomad_methods

      Public
      Hail helper functions for the gnomAD project and Translational Genomics Group
      genomicsgenomesexomes
      genomicsgenomesexomeshail
      Python
      •
      MIT License
      •32•100•8•8•Updated Apr 24, 2026Apr 24, 2026

    • MicroSplit-reproducibility

      Public
      Notebooks, scripts and utilities to reproduce MicroSplit
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •6•0•0•24•Updated Apr 24, 2026Apr 24, 2026

    • single_cell_portal_core

      Public
      Rails/Docker application for the Broad Institute's single cell RNA-seq data portal
      rna-seq-analysissingle-cell-genomicshuman-cell-atlas
      rna-seq-analysissingle-cell-genomicshuman-cell-atlas
      Ruby
      •
      BSD 3-Clause "New" or "Revised" License
      •28•70•0•4•Updated Apr 24, 2026Apr 24, 2026

    • sam

      Public
      workbench identity and access management
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •12•43•3•10•Updated Apr 24, 2026Apr 24, 2026

    • palantir-workflows

      Public
      Utility workflows for the DSP hydro.gen team (formerly palantir)
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •13•28•4•2•Updated Apr 24, 2026Apr 24, 2026

    • lrma-aou2-panel-creation

      Public
      Pipelines and evaluations covering integration, phasing, and imputation of short and structural variants for the AoU Phase 2 long-reads callset.
      Java
      •2•0•0•2•Updated Apr 24, 2026Apr 24, 2026

    • delphy

      Public
      Fast, scalable, accurate and accessible Bayesian phylogenetics
      C++
      •
      MIT License
      •4•44•0•0•Updated Apr 24, 2026Apr 24, 2026

    • jx

      Public
      JUMP eXplore — skill library and marimo notebook catalog for working with JUMP Cell Painting data
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•3•1•0•Updated Apr 24, 2026Apr 24, 2026

    • permutect

      Public
      Permutect, an incredibly efficient deep learning architecture for somatic and germline variant calling
      Python
      •
      Apache License 2.0
      •2•12•11•1•Updated Apr 23, 2026Apr 23, 2026
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