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    1.3k repositories

    • cds-daintree

      Public
      Python
      •0•0•0•1•Updated Jan 27, 2025Jan 27, 2025

    • depmap-portal

      Public
      Code for the DepMap portal at depmap.org
      Python
      •
      BSD 2-Clause "Simplified" License
      •1•7•0•12•Updated Jan 27, 2025Jan 27, 2025

    • gtex-pipeline

      Public
      GTEx & TOPMed data production and analysis pipelines
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •177•355•10•3•Updated Jan 27, 2025Jan 27, 2025

    • bits-appengine

      Public
      BITS AppEngine Python Package
      Python
      •0•0•0•1•Updated Jan 27, 2025Jan 27, 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 Jan 27, 2025Jan 27, 2025

    • dig-dug-portal

      Public
      Vue
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•0•Updated Jan 26, 2025Jan 26, 2025

    • mitograph

      Public
      Rust
      •0•0•0•0•Updated Jan 26, 2025Jan 26, 2025

    • juniper

      Public
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•9•0•7•Updated Jan 26, 2025Jan 26, 2025

    • PTA_Analysis

      Public
      WDL
      •0•0•0•0•Updated Jan 26, 2025Jan 26, 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 Jan 26, 2025Jan 26, 2025

    • pyqtl

      Public
      Collection of analysis tools for quantitative trait loci
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •8•48•0•2•Updated Jan 25, 2025Jan 25, 2025

    • ygramul

      Public
      Hierarchical knowledge graph for PIGEAN results
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 25, 2025Jan 25, 2025

    • backstage

      Public
      Broad Institute Engineering Portal is an Internal Developer Platform (Spotify Backstage by another name)
      TypeScript
      •0•2•5•5•Updated Jan 25, 2025Jan 25, 2025

    • celldega

      Public
      Spatial omics analysis and visualization library
      Jupyter Notebook
      •
      Other
      •0•4•1•10•Updated Jan 25, 2025Jan 25, 2025

    • dcc_pigean_flask

      Public
      Flask server for the Pigean method
      Python
      •1•0•2•0•Updated Jan 25, 2025Jan 25, 2025

    • imaging-platform-pipelines

      Public
      Cell Painting and other pipelines from the Imaging Platform
      carpenter-lab
      13•15•2•2•Updated Jan 25, 2025Jan 25, 2025

    • gatk-sv

      Public
      A structural variation pipeline for short-read sequencing
      bioinformaticsgenomicsstructural-variationstructural-variants
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •72•176•74•23•Updated Jan 24, 2025Jan 24, 2025

    • gatk

      Public
      Official code repository for GATK versions 4 and up
      sciencebioinformaticsgenomicsgenomengssequencingdnasparkgatk
      Java
      •
      Other
      •597•1.8k•1.2k•137•Updated Jan 24, 2025Jan 24, 2025

    • agora

      Public
      It's a methods repository!
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •2•11•0•2•Updated Jan 24, 2025Jan 24, 2025

    • gnomad-browser

      Public
      Explore gnomAD datasets on the web
      javascriptgenomicsgnomad
      TypeScript
      •
      MIT License
      •45•81•156•13•Updated Jan 24, 2025Jan 24, 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•745•48•Updated Jan 24, 2025Jan 24, 2025

    • seqr

      Public
      web-based analysis tool for rare disease genomics
      Python
      •
      GNU Affero General Public License v3.0
      •89•180•54•2•Updated Jan 24, 2025Jan 24, 2025

    • asari

      Public
      asari, metabolomics data preprocessing
      Python
      •
      Other
      •11•0•0•0•Updated Jan 24, 2025Jan 24, 2025

    • ops-terra-utils

      Public
      Python
      •0•3•0•3•Updated Jan 24, 2025Jan 24, 2025

    • bmxp

      Public
      The tools that constitute a nontargeted LCMS metabolomics data processing pipeline, created and used by the Broad Institute Metabolomics Platform.
      Python
      •
      Other
      •0•6•0•0•Updated Jan 24, 2025Jan 24, 2025

    • seqr-helm

      Public
      Helm charts for the seqr project
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•0•Updated Jan 24, 2025Jan 24, 2025

    • gnomad-blog

      Public
      Blog for the gnomAD project
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•7•3•Updated Jan 24, 2025Jan 24, 2025

    • warp

      Public
      WDL Analysis Research Pipelines
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •100•207•8•18•Updated Jan 24, 2025Jan 24, 2025

    • rawls

      Public
      Rawls service for DSDE
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•26•0•10•Updated Jan 24, 2025Jan 24, 2025

    • T2T-ACE

      Public
      Accurate CNV Evaluation Using Telomere-to-Telomere Assemblies
      Jupyter Notebook
      •
      MIT License
      •0•4•1•1•Updated Jan 24, 2025Jan 24, 2025