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    1.3k repositories

    • gnomad-browser

      Public
      Explore gnomAD datasets on the web
      javascriptgenomicsgnomad
      TypeScript
      •
      MIT License
      •44•81•160•15•Updated Nov 8, 2024Nov 8, 2024

    • SpliceAI-lookup-dev

      Public
      dev UIs for spliceai-lookup.broadinstitute.org
      HTML
      •
      MIT License
      •0•0•0•0•Updated Nov 8, 2024Nov 8, 2024

    • seqr-helm

      Public
      Helm charts for the seqr project
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•3•Updated Nov 8, 2024Nov 8, 2024

    • long-read-pipelines

      Public
      Long read production pipelines
      pipelineswdlvariant-callingde-novo-assemblylong-reads
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •25•141•95•26•Updated Nov 8, 2024Nov 8, 2024

    • viral-core

      Public
      viral-ngs: read QC, barcode metrics, spike-in metrics, Illumina metrics and demux
      Python
      •
      Other
      •0•3•9•1•Updated Nov 8, 2024Nov 8, 2024

    • malaria

      Public
      WDL
      •
      MIT License
      •0•1•1•0•Updated Nov 8, 2024Nov 8, 2024

    • juniper

      Public
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•8•0•9•Updated Nov 8, 2024Nov 8, 2024

    • gatk-sv

      Public
      A structural variation pipeline for short-read sequencing
      bioinformaticsgenomicsstructural-variationstructural-variants
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •72•171•73•22•Updated Nov 8, 2024Nov 8, 2024

    • sam

      Public
      workbench identity and access management
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •12•42•3•44•Updated Nov 7, 2024Nov 7, 2024

    • ops-terra-utils

      Public
      Python
      •0•3•0•2•Updated Nov 7, 2024Nov 7, 2024

    • lembic

      Public
      Distilling some data for CFDE
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • depmap_omics_upload

      Public
      Subset and upload data to taiga for DepMap data releases
      Python
      •
      The Unlicense
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • rawls

      Public
      Rawls service for DSDE
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•26•0•21•Updated Nov 7, 2024Nov 7, 2024

    • penyu

      Public
      Write some RDF as Turtle
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • depmap-portal

      Public
      Code for the DepMap portal at depmap.org
      Python
      •
      BSD 2-Clause "Simplified" License
      •1•7•0•4•Updated Nov 7, 2024Nov 7, 2024

    • shibboleth-service-provider

      Public
      A generic Shibboleth service provider service for use in Shibboleth authentication schemes.
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •2•2•1•4•Updated Nov 7, 2024Nov 7, 2024

    • openidc-terra-proxy

      Public
      OpenIDC proxy to be used for all Terra services
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•1•4•Updated Nov 7, 2024Nov 7, 2024

    • gatk

      Public
      Official code repository for GATK versions 4 and up
      sciencebioinformaticsgenomicsgenomengssequencingdnasparkgatk
      Java
      •
      Other
      •591•1.7k•1.2k•141•Updated Nov 7, 2024Nov 7, 2024

    • ddp-study-server

      Public
      Pepper Study Server
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•8•1•3•Updated Nov 7, 2024Nov 7, 2024

    • molecular-data-provider

      Public
      Molecular Data Provider
      Python
      •
      MIT License
      •8•11•3•5•Updated Nov 7, 2024Nov 7, 2024

    • warp

      Public
      WDL Analysis Research Pipelines
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •96•202•6•23•Updated Nov 7, 2024Nov 7, 2024

    • strey

      Public
      Memory-efficient strings, borrowed or owned, optionally shared prefixes. Ideal for ids or keys.
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • seqr

      Public
      web-based analysis tool for rare disease genomics
      Python
      •
      GNU Affero General Public License v3.0
      •89•176•54•4•Updated Nov 7, 2024Nov 7, 2024

    • hidive

      Public
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•3•2•Updated Nov 7, 2024Nov 7, 2024

    • seqr-loading-pipelines

      Public
      hail-based pipelines for annotating variant callsets and exporting them to elasticsearch
      Python
      •
      MIT License
      •20•22•31•2•Updated Nov 7, 2024Nov 7, 2024

    • 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
      •360•995•742•45•Updated Nov 7, 2024Nov 7, 2024

    • palantir-workflows

      Public
      Utility workflows for the DSP hydro.gen team (formerly palantir)
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •8•19•4•4•Updated Nov 7, 2024Nov 7, 2024

    • 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
      Ruby
      •
      BSD 3-Clause "New" or "Revised" License
      •26•62•0•0•Updated Nov 7, 2024Nov 7, 2024

    • dig-dug-portal

      Public
      Vue
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•0•Updated Nov 7, 2024Nov 7, 2024

    • backstage

      Public
      Broad Institute Engineering Portal is an Internal Developer Platform (Spotify Backstage by another name)
      TypeScript
      •0•2•0•3•Updated Nov 7, 2024Nov 7, 2024