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    • seqr-loading-pipelines

      Public
      hail-based pipelines for annotating variant callsets and exporting them to elasticsearch
      Python
      •
      MIT License
      •20•22•27•3•Updated Dec 31, 2024Dec 31, 2024

    • 2024-09-27-python-intro-lesson

      Public
      Based on https://github.com/librarycarpentry/lc-python-intro/
      HTML
      •
      Other
      •1•0•0•1•Updated Dec 31, 2024Dec 31, 2024

    • 2024-09-20-unix-shell-lesson

      Public
      Based on https://github.com/datacarpentry/shell-genomics/
      R
      •
      Other
      •0•0•0•0•Updated Dec 31, 2024Dec 31, 2024

    • 2024-06-24-python-novice-lesson

      Public
      based on https://swcarpentry.github.io/python-novice-inflammation/
      Jupyter Notebook
      •
      Other
      •0•0•0•0•Updated Dec 31, 2024Dec 31, 2024

    • shared-workflows

      Public
      GitHub Action workflows that can be shared by multiple repositories
      BSD 3-Clause "New" or "Revised" License
      •1•0•3•3•Updated Dec 30, 2024Dec 30, 2024

    • malaria

      Public
      R
      •
      MIT License
      •0•1•0•0•Updated Dec 30, 2024Dec 30, 2024

    • python-sudoers

      Public
      Python library for parsing a Linux sudoers file
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •7•7•2•3•Updated Dec 30, 2024Dec 30, 2024

    • glama

      Public
      Genomic long-read analysis modules and applications
      Rust
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•2•Updated Dec 30, 2024Dec 30, 2024

    • warp

      Public
      WDL Analysis Research Pipelines
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •98•207•7•20•Updated Dec 30, 2024Dec 30, 2024

    • ml4h

      Public
      Python
      •
      Other
      •24•126•30•21•Updated Dec 30, 2024Dec 30, 2024

    • juniper

      Public
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •5•9•0•15•Updated Dec 30, 2024Dec 30, 2024

    • heimdall

      Public
      Shell
      •0•0•0•0•Updated Dec 30, 2024Dec 30, 2024

    • carmen-analysis

      Public
      Python
      •
      MIT License
      •0•3•0•0•Updated Dec 30, 2024Dec 30, 2024

    • bits-appengine

      Public
      BITS AppEngine Python Package
      Python
      •0•0•0•2•Updated Dec 30, 2024Dec 30, 2024

    • sherlock

      Public
      DSP DevOps's deployment source-of-truth service
      golangpostgresgorm
      Go
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•4•Updated Dec 30, 2024Dec 30, 2024

    • stp_celldega_landscape_files

      Public
      0•0•0•0•Updated Dec 29, 2024Dec 29, 2024

    • stp_space_ranger

      Public
      WDL
      •0•0•0•0•Updated Dec 29, 2024Dec 29, 2024

    • delphy

      Public
      Fast, scalable, accurate and accessible Bayesian phylogenetics
      C++
      •
      Other
      •3•29•0•0•Updated Dec 29, 2024Dec 29, 2024

    • juniper0

      Public
      Preliminary Version of JUNIPER: Large-Scale Outbreak Reconstruction
      R
      •
      MIT License
      •0•2•0•0•Updated Dec 27, 2024Dec 27, 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
      •359•1k•745•48•Updated Dec 26, 2024Dec 26, 2024

    • orsp-pub

      Public
      Public ORSP Compliance Portal
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•0•25•Updated Dec 26, 2024Dec 26, 2024

    • thurloe

      Public
      A simple service to store arbitrary key/value pairs
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•0•5•Updated Dec 26, 2024Dec 26, 2024

    • ABC-Enhancer-Gene-Prediction

      Public
      Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
      Python
      •
      MIT License
      •64•210•19•1•Updated Dec 25, 2024Dec 25, 2024

    • mcl_imput

      Public
      WDL Analysis Research Pipelines
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •98•0•0•3•Updated Dec 24, 2024Dec 24, 2024

    • depmap-portal

      Public
      Code for the DepMap portal at depmap.org
      Python
      •
      BSD 2-Clause "Simplified" License
      •1•7•0•6•Updated Dec 24, 2024Dec 24, 2024

    • Methyl-CODEC

      Public
      C++
      •
      Other
      •0•0•0•0•Updated Dec 24, 2024Dec 24, 2024

    • cms2-work

      Public
      Gather in one place various repos and files related to CMS2.0 work.
      Python
      •
      Apache License 2.0
      •3•1•0•0•Updated Dec 23, 2024Dec 23, 2024

    • jump-profiling-recipe

      Public
      Workflow for processing cpg0016-jump profiles
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •6•2•6•2•Updated Dec 23, 2024Dec 23, 2024

    • carpenter-singh-lab-standards

      Public
      BSD 3-Clause "New" or "Revised" License
      •0•0•2•1•Updated Dec 23, 2024Dec 23, 2024

    • rawls

      Public
      Rawls service for DSDE
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •4•26•0•11•Updated Dec 23, 2024Dec 23, 2024