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    1.3k repositories

    • seqr-loading-pipelines

      Public
      hail-based pipelines for annotating variant callsets and exporting them to elasticsearch
      Python
      •
      MIT License
      •20•22•32•2•Updated Nov 6, 2024Nov 6, 2024

    • depmap-portal

      Public
      Code for the DepMap portal at depmap.org
      Python
      •
      BSD 2-Clause "Simplified" License
      •1•7•0•6•Updated Nov 6, 2024Nov 6, 2024

    • epi-SHARE-seq-pipeline

      Public
      Epigenomics Program pipeline to analyze SHARE-seq data.
      WDL
      •
      MIT License
      •3•17•28•1•Updated Nov 6, 2024Nov 6, 2024

    • puppet-qualys_agent

      Public
      Puppet module for installing and configuring the Qualys Cloud Agent
      Ruby
      •
      BSD 3-Clause "New" or "Revised" License
      •9•3•2•0•Updated Nov 6, 2024Nov 6, 2024

    • seqr-helm

      Public
      Helm charts for the seqr project
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•1•Updated Nov 5, 2024Nov 5, 2024

    • monorepo

      Public
      Compendium of tools for the Imaging Platform
      Python
      •1•9•7•2•Updated Nov 5, 2024Nov 5, 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•3•Updated Nov 5, 2024Nov 5, 2024

    • gatk-sv

      Public
      A structural variation pipeline for short-read sequencing
      bioinformaticsgenomicsstructural-variationstructural-variants
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •71•171•73•21•Updated Nov 5, 2024Nov 5, 2024

    • gnomad-browser

      Public
      Explore gnomAD datasets on the web
      javascriptgenomicsgnomad
      TypeScript
      •
      MIT License
      •43•81•160•15•Updated Nov 5, 2024Nov 5, 2024

    • seqr

      Public
      web-based analysis tool for rare disease genomics
      Python
      •
      GNU Affero General Public License v3.0
      •89•176•50•4•Updated Nov 5, 2024Nov 5, 2024

    • jati

      Public
      DSL support library for Rust
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Nov 5, 2024Nov 5, 2024

    • chbv

      Public
      HTML
      •
      MIT License
      •0•0•13•0•Updated Nov 5, 2024Nov 5, 2024

    • warp

      Public
      WDL Analysis Research Pipelines
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •96•202•6•24•Updated Nov 5, 2024Nov 5, 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•5•Updated Nov 5, 2024Nov 5, 2024

    • gatk

      Public
      Official code repository for GATK versions 4 and up
      sciencebioinformaticsgenomicsgenomengssequencingdnasparkgatk
      Java
      •
      Other
      •591•1.7k•1.2k•141•Updated Nov 5, 2024Nov 5, 2024

    • firecloud-orchestration

      Public
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•31•0•2•Updated Nov 5, 2024Nov 5, 2024

    • rawls

      Public
      Rawls service for DSDE
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•26•0•27•Updated Nov 5, 2024Nov 5, 2024

    • ops-terra-utils

      Public
      Python
      •0•2•0•2•Updated Nov 5, 2024Nov 5, 2024

    • thurloe

      Public
      A simple service to store arbitrary key/value pairs
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•0•25•Updated Nov 5, 2024Nov 5, 2024

    • workbench-libs

      Public
      Workbench utility libraries
      Scala
      •
      Other
      •4•8•0•2•Updated Nov 5, 2024Nov 5, 2024

    • sam

      Public
      workbench identity and access management
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •12•42•3•47•Updated Nov 5, 2024Nov 5, 2024

    • datarepo-helm

      Public
      A helm repo for Broad Data Science Platforms helm charts
      Mustache
      •1•5•0•5•Updated Nov 5, 2024Nov 5, 2024

    • juniper

      Public
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•8•0•12•Updated Nov 5, 2024Nov 5, 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•1•Updated Nov 5, 2024Nov 5, 2024

    • hidive

      Public
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•3•1•Updated Nov 5, 2024Nov 5, 2024

    • viral-pipelines

      Public
      viral-ngs: complete pipelines
      WDL
      •
      Other
      •28•60•23•19•Updated Nov 5, 2024Nov 5, 2024

    • genetic-prevalence-estimator

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•46•1•Updated Nov 5, 2024Nov 5, 2024

    • cellpainting-gallery

      Public
      Cell Painting Gallery
      MIT License
      •11•68•6•1•Updated Nov 5, 2024Nov 5, 2024

    • submissions

      Public
      Python
      •0•1•0•1•Updated Nov 5, 2024Nov 5, 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 5, 2024Nov 5, 2024