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    1.3k repositories

    • cellpainting-gallery

      Public
      Cell Painting Gallery
      Other
      •12•75•7•2•Updated Jan 23, 2025Jan 23, 2025

    • viral-pipelines

      Public
      viral-ngs: complete pipelines
      WDL
      •
      Other
      •28•61•23•17•Updated Jan 23, 2025Jan 23, 2025

    • warp

      Public
      WDL Analysis Research Pipelines
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •100•207•8•17•Updated Jan 23, 2025Jan 23, 2025

    • gatk

      Public
      Official code repository for GATK versions 4 and up
      sciencebioinformaticsgenomicsgenomengssequencingdnasparkgatk
      Java
      •
      Other
      •597•1.8k•1.2k•137•Updated Jan 23, 2025Jan 23, 2025

    • seqr

      Public
      web-based analysis tool for rare disease genomics
      Python
      •
      GNU Affero General Public License v3.0
      •89•180•55•4•Updated Jan 23, 2025Jan 23, 2025

    • rawls

      Public
      Rawls service for DSDE
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•26•0•11•Updated Jan 23, 2025Jan 23, 2025

    • depmap-portal

      Public
      Code for the DepMap portal at depmap.org
      Python
      •
      BSD 2-Clause "Simplified" License
      •1•7•0•9•Updated Jan 23, 2025Jan 23, 2025

    • ygramul

      Public
      Hierarchical knowledge graph for PIGEAN results
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 23, 2025Jan 23, 2025

    • juniper

      Public
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•9•0•6•Updated Jan 23, 2025Jan 23, 2025

    • gnomad_qc

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •27•69•7•11•Updated Jan 23, 2025Jan 23, 2025

    • ddp-study-server

      Public
      Pepper Study Server
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•8•1•3•Updated Jan 23, 2025Jan 23, 2025

    • gnomad-toolbox

      Public
      This repository provides a set of Python functions to simplify working with gnomAD Hail Tables. It includes tools for data access, filtering, and analysis.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•0•Updated Jan 23, 2025Jan 23, 2025

    • backstage

      Public
      Broad Institute Engineering Portal is an Internal Developer Platform (Spotify Backstage by another name)
      TypeScript
      •0•2•5•5•Updated Jan 23, 2025Jan 23, 2025

    • celldega

      Public
      Spatial omics analysis and visualization library
      Jupyter Notebook
      •
      Other
      •0•4•1•7•Updated Jan 23, 2025Jan 23, 2025

    • gnomad_methods

      Public
      Hail helper functions for the gnomAD project and Translational Genomics Group
      genomicsgenomesexomeshail
      Python
      •
      MIT License
      •29•92•11•6•Updated Jan 23, 2025Jan 23, 2025

    • PANOPLY

      Public
      Repository for the Broad Institute Proteogenomic Data Analysis Center (PGDAC) established by the NIH Clinical Proteomics Tumor Analysis Consortium (CPTAC)
      R
      •
      Other
      •15•33•0•1•Updated Jan 23, 2025Jan 23, 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•47•Updated Jan 23, 2025Jan 23, 2025

    • firecloud-orchestration

      Public
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•31•0•1•Updated Jan 23, 2025Jan 23, 2025

    • helm-scala-sdk

      Public
      Scala
      •0•0•0•3•Updated Jan 23, 2025Jan 23, 2025

    • ops-terra-utils

      Public
      Python
      •0•3•0•2•Updated Jan 23, 2025Jan 23, 2025

    • dig-dug-portal

      Public
      Vue
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•2•Updated Jan 23, 2025Jan 23, 2025

    • seqr-helm

      Public
      Helm charts for the seqr project
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•0•Updated Jan 23, 2025Jan 23, 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•21•2•Updated Jan 23, 2025Jan 23, 2025

    • juniper0

      Public
      Preliminary Version of JUNIPER: Large-Scale Outbreak Reconstruction
      R
      •
      MIT License
      •0•3•0•0•Updated Jan 23, 2025Jan 23, 2025

    • scp-ingest-pipeline

      Public
      File Ingest Pipeline for Single Cell Portal
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•5•0•1•Updated Jan 23, 2025Jan 23, 2025

    • 2021_09_01_VarChAMP

      Public
      Jupyter Notebook
      •
      MIT License
      •5•0•13•0•Updated Jan 23, 2025Jan 23, 2025

    • PaulaLlanos_Projects

      Public
      This is a repository where I am sharing the process of image-processing projects
      Jupyter Notebook
      •0•0•0•0•Updated Jan 23, 2025Jan 23, 2025

    • gnomad-browser

      Public
      Explore gnomAD datasets on the web
      javascriptgenomicsgnomad
      TypeScript
      •
      MIT License
      •45•81•156•14•Updated Jan 23, 2025Jan 23, 2025

    • sam

      Public
      workbench identity and access management
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •12•42•3•28•Updated Jan 23, 2025Jan 23, 2025

    • viral-phylo

      Public
      viral-ngs: phylogenetics, annotation, intrahost variants
      Python
      •
      Other
      •0•2•8•1•Updated Jan 23, 2025Jan 23, 2025