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@griffithlab The Griffith Lab

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    82 repositories

    • civic-v2

      Public
      CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer
      cancervariantscancer-genomics
      cancervariantscancer-genomicsbiocurationnci-itcrvariant-curation
      TypeScript
      •
      MIT License
      •6•32•81•12•Updated Apr 4, 2026Apr 4, 2026

    • civic-docs

      Public
      Source code for the civicdb.org docs
      civic
      civic
      Creative Commons Zero v1.0 Universal
      •9•5•22•2•Updated Apr 1, 2026Apr 1, 2026

    • pVACtools_Intro_Course

      Public
      Getting started with pVACtools - pVACseq, pVACbind and pVACview
      CSS
      •
      Creative Commons Attribution 4.0 International
      •2•0•0•0•Updated Apr 1, 2026Apr 1, 2026

    • civicpy

      Public
      A python interface for the CIViC db application
      civic
      civic
      Python
      •
      MIT License
      •8•11•28•14•Updated Mar 31, 2026Mar 31, 2026

    • pVACtools

      Public
      cancersequencingvariants
      cancersequencingvariantsimmunotherapyimmunogenomicsfusionsneoantigensantigens
      Python
      •
      BSD 3-Clause Clear License
      •77•173•90•8•Updated Mar 27, 2026Mar 27, 2026

    • pmbio.org

      Public
      Website for the precision medicine workshop
      SCSS
      •
      MIT License
      •22•48•13•2•Updated Mar 24, 2026Mar 24, 2026

    • rnabio.org

      Public
      website for the rnaseq course
      SCSS
      •
      MIT License
      •44•118•19•5•Updated Mar 24, 2026Mar 24, 2026

    • genviz.org

      Public
      Genomic data interpretation and visualization Workshop
      SCSS
      •
      MIT License
      •4•22•14•2•Updated Mar 24, 2026Mar 24, 2026

    • TL-MHC

      Public
      R
      •1•0•0•0•Updated Mar 16, 2026Mar 16, 2026

    • docker-pvactools

      Public
      Python
      •
      Other
      •8•3•0•0•Updated Mar 13, 2026Mar 13, 2026

    • ImmuScope

      Public
      Python
      •
      GNU General Public License v3.0
      •3•0•0•0•Updated Mar 7, 2026Mar 7, 2026

    • civic-mcp-server

      Public
      JavaScript
      •
      Other
      •1•1•0•0•Updated Feb 17, 2026Feb 17, 2026

    • VAtools

      Public
      A set of tools to annotate VCF files with expression and readcount data
      Python
      •
      MIT License
      •13•30•9•1•Updated Jan 30, 2026Jan 30, 2026

    • GenVisR

      Public
      Genome data visualizations
      R
      •
      Creative Commons Zero v1.0 Universal
      •64•222•61•4•Updated Jan 10, 2026Jan 10, 2026

    • ImmunoNX_protocol

      Public
      Tutorial for running immuno.wdl on Google Cloud
      MIT License
      •2•4•0•0•Updated Dec 23, 2025Dec 23, 2025

    • bigmhc

      Public
      BigMHC predicts MHC-I (neo)epitope presentation and immunogenicity
      Jupyter Notebook
      •
      Other
      •14•0•0•0•Updated Dec 17, 2025Dec 17, 2025

    • peptide-sequence-synthesis

      Public
      Python
      •0•0•0•0•Updated Dec 15, 2025Dec 15, 2025

    • griffithlab.org

      Public
      Griffith lab research website
      JavaScript
      •
      MIT License
      •29•17•1•0•Updated Nov 29, 2025Nov 29, 2025

    • pvactools_percentiles_data

      Public
      pvactools algorithm prediction scores for reference peptides to enable percentiles calculations
      Python
      •
      MIT License
      •0•0•0•0•Updated Nov 21, 2025Nov 21, 2025

    • neoag_vaccine_scripts

      Public
      Python
      •
      MIT License
      •1•0•9•2•Updated Sep 19, 2025Sep 19, 2025

    • fusion_review

      Public
      Python
      •0•0•0•0•Updated Sep 11, 2025Sep 11, 2025

    • docker-hla-hd

      Public
      Dockerfile, dictionary and scripts needed to run hla-hd
      C
      •0•0•0•0•Updated Aug 29, 2025Aug 29, 2025

    • civic-meeting

      Public
      Repo for advertising and organizing CIViC unconference/meeting activities
      civiccurationunconference
      civiccurationunconferencecivic-meetings
      3•10•19•0•Updated Jul 24, 2025Jul 24, 2025

    • CIVIC_SVI_Course

      Public
      A hands on course explaining how to complete somatic cancer variant interpretation using CIViC and current guidelines
      CSS
      •
      Creative Commons Attribution 4.0 International
      •2•0•0•1•Updated Jun 6, 2025Jun 6, 2025

    • htlv_integration_sites

      Public
      HTLV-1 integration site analysis notes and scripts
      R
      •
      MIT License
      •0•0•0•0•Updated Apr 9, 2025Apr 9, 2025

    • docker-vatools

      Public
      Dockerfile
      •1•0•0•0•Updated Mar 4, 2025Mar 4, 2025

    • pVACcompare

      Public
      JavaScript
      •0•0•0•0•Updated Jan 28, 2025Jan 28, 2025

    • docm

      Public archive
      Retired Project: Rails frontend to The Genome Institute's database of curated mutations (DoCM)
      Ruby
      •
      MIT License
      •5•6•6•0•Updated Oct 15, 2024Oct 15, 2024

    • regtools

      Public
      Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.
      C++
      •
      MIT License
      •30•136•42•5•Updated Aug 21, 2024Aug 21, 2024

    • usp7_scripts

      Public
      Analysis collaboration with Albert Kim lab - impact of USP7 knockout on splicing
      R
      •
      MIT License
      •0•0•0•0•Updated Jul 16, 2024Jul 16, 2024
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