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@KarchinLab

KarchinLab

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  1. open-cravat open-cravat Public

    A modular annotation tool for genomic variants

    JavaScript 146 41

  2. 2020plus 2020plus Public

    Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests

    Python 50 17

  3. mhcnuggets mhcnuggets Public

    MHC Class I and Class II neoantigen binding prediction

    Python 34 14

  4. bigmhc bigmhc Public

    BigMHC predicts MHC-I (neo)epitope presentation and immunogenicity

    Jupyter Notebook 60 12

  5. pictograph pictograph Public

    A Bayesian hierarchical model to build tumor evolutionary trees

    R 5 1

  6. open-cravat-dxapp open-cravat-dxapp Public

    open-cravat-dxapp

    Python 1

Repositories

Showing 10 of 46 repositories
  • oc-mcp Public
    KarchinLab/oc-mcp’s past year of commit activity
    TypeScript 1 0 0 0 Updated Jan 30, 2026
  • SVCFit Public
    KarchinLab/SVCFit’s past year of commit activity
    R 0 MIT 1 2 0 Updated Jan 29, 2026
  • TCRtoolkit Public

    A NextFlow pipeline for processing and analyzing TCRseq data

    KarchinLab/TCRtoolkit’s past year of commit activity
    Nextflow 2 MIT 2 10 1 Updated Jan 29, 2026
  • pictographPlus Public

    pictograph with copy number added

    KarchinLab/pictographPlus’s past year of commit activity
    R 0 1 0 0 Updated Jan 28, 2026
  • open-cravat-modules-karchinlab Public
    KarchinLab/open-cravat-modules-karchinlab’s past year of commit activity
    JavaScript 1 MIT 11 1 4 Updated Jan 27, 2026
  • open-cravat Public

    A modular annotation tool for genomic variants

    KarchinLab/open-cravat’s past year of commit activity
    JavaScript 146 MIT 41 54 (6 issues need help) 4 Updated Jan 26, 2026
  • PICTographPlus_manuscript Public

    Scripts used for generating results in the PICTographPlus manuscript

    KarchinLab/PICTographPlus_manuscript’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jan 14, 2026
  • bigmhc Public

    BigMHC predicts MHC-I (neo)epitope presentation and immunogenicity

    KarchinLab/bigmhc’s past year of commit activity
    Jupyter Notebook 60 12 1 1 Updated Dec 17, 2025
  • Do-Pseudoseqs-Matter Public

    Code and materials for the paper "Do Pseudosequences Matter in Neoantigen Prediction?"

    KarchinLab/Do-Pseudoseqs-Matter’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Dec 9, 2025
  • pictograph Public

    A Bayesian hierarchical model to build tumor evolutionary trees

    KarchinLab/pictograph’s past year of commit activity
    R 5 1 6 1 Updated Oct 25, 2025
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