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    1.3k repositories

    • rawls

      Public
      Rawls service for DSDE
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•26•0•12•Updated Mar 2, 2025Mar 2, 2025

    • BEClust3D

      Public
      Jupyter Notebook
      •
      Other
      •0•0•0•8•Updated Mar 2, 2025Mar 2, 2025

    • malaria

      Public
      R
      •
      MIT License
      •0•1•2•0•Updated Mar 1, 2025Mar 1, 2025

    • backstage

      Public
      Broad Institute Engineering Portal is an Internal Developer Platform (Spotify Backstage by another name)
      TypeScript
      •0•2•3•11•Updated Mar 1, 2025Mar 1, 2025

    • palantir-workflows

      Public
      Utility workflows for the DSP hydro.gen team (formerly palantir)
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •8•23•4•3•Updated Mar 1, 2025Mar 1, 2025

    • long-read-pipelines

      Public
      Long read production pipelines
      pipelineswdlvariant-callingde-novo-assemblylong-reads
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •25•144•95•26•Updated Mar 1, 2025Mar 1, 2025

    • viral-pipelines

      Public
      viral-ngs: complete pipelines
      WDL
      •
      Other
      •28•61•24•18•Updated Mar 1, 2025Mar 1, 2025

    • viral-workshops

      Public
      Documentation for viral analysis workshops
      HTML
      •
      BSD 2-Clause "Simplified" License
      •0•3•0•2•Updated Mar 1, 2025Mar 1, 2025

    • BCL-Examples

      Public
      Storehouse of Scripts to share with our API customers to assist with their interactions with BCL Orders
      Python
      •0•1•0•2•Updated Mar 1, 2025Mar 1, 2025

    • ABC-Enhancer-Gene-Prediction

      Public
      Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
      Python
      •
      MIT License
      •65•215•6•1•Updated Mar 1, 2025Mar 1, 2025

    • depmap-portal

      Public
      Code for the DepMap portal at depmap.org
      Python
      •
      BSD 2-Clause "Simplified" License
      •1•7•0•8•Updated Mar 1, 2025Mar 1, 2025

    • dsp-reusable-workflows

      Public
      publicly available reusable workflows
      Python
      •0•1•0•4•Updated Feb 28, 2025Feb 28, 2025

    • nf-combinomics

      Public
      Nextflow implementation of the combinomics pipeline
      Nextflow
      •
      MIT License
      •0•0•0•0•Updated Feb 28, 2025Feb 28, 2025

    • jati

      Public
      DSL support library for Rust
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Feb 28, 2025Feb 28, 2025

    • dig-dug-portal

      Public
      Vue
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•0•Updated Feb 28, 2025Feb 28, 2025

    • gnomad-browser

      Public
      Explore gnomAD datasets on the web
      javascriptgenomicsgnomad
      TypeScript
      •
      MIT License
      •47•81•161•12•Updated Feb 28, 2025Feb 28, 2025

    • seqr

      Public
      web-based analysis tool for rare disease genomics
      Python
      •
      GNU Affero General Public License v3.0
      •89•185•50•8•Updated Feb 28, 2025Feb 28, 2025

    • 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•67•0•2•Updated Feb 28, 2025Feb 28, 2025

    • ops-terra-utils

      Public
      Python
      •0•4•0•4•Updated Feb 28, 2025Feb 28, 2025

    • MDL-workflows

      Public
      Workflow, utilities and other artefacts developed by or for the Methods Development Lab at the Broad Institute
      WDL
      •4•3•1•0•Updated Feb 28, 2025Feb 28, 2025

    • puppet-rssh

      Public
      Puppet module for rssh
      Ruby
      •
      ISC License
      •4•0•0•0•Updated Feb 28, 2025Feb 28, 2025

    • dsp-appsec-infrastructure-apps

      Public
      This repository hosts DSP AppSec internal infrastructure apps deployed in GKE.
      application-securityappsecsecurity-scannersecure-developmentsecurity-automationsecurity-toolsdevsecopssecurity-scanappsecurityappsec-tools
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•6•0•2•Updated Feb 28, 2025Feb 28, 2025

    • warp

      Public
      WDL Analysis Research Pipelines
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •102•209•4•16•Updated Feb 28, 2025Feb 28, 2025

    • gumbo_client

      Public
      python client for DepMap Gumbo database
      Python
      •0•5•1•0•Updated Feb 28, 2025Feb 28, 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
      •360•1k•744•47•Updated Feb 28, 2025Feb 28, 2025

    • dig-aggregator-methods

      Public
      Monorepo of methods implemented for the Aggregator
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•0•7•Updated Feb 28, 2025Feb 28, 2025

    • gnomad_methods

      Public
      Hail helper functions for the gnomAD project and Translational Genomics Group
      genomicsgenomesexomeshail
      Python
      •
      MIT License
      •29•93•7•9•Updated Feb 28, 2025Feb 28, 2025

    • broad-epi-workflows-collection

      Public
      This repo contains WDL workflows written by the Epigenomics program.
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Feb 28, 2025Feb 28, 2025

    • hidive

      Public
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•5•1•Updated Feb 28, 2025Feb 28, 2025

    • juniper

      Public
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•9•0•5•Updated Feb 28, 2025Feb 28, 2025