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@openvax

OpenVax

Open source software for personalized cancer vaccines

Pinned

  1. pyensembl Public

    Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl

    Python 297 55

  2. varcode Public

    Library for manipulating genomic variants and predicting their effects

    Python 71 24

  3. mhcflurry Public

    Peptide-MHC I binding affinity prediction

    Python 148 46

  4. vaxrank Public

    Ranked vaccine peptides for personalized cancer immunotherapy

    Python 43 16

  5. mhctools Public

    Python interface to running command-line and web-based MHC binding predictors

    Python 68 14

  6. Bioinformatics pipeline for selecting patient-specific cancer neoantigen vaccines

    Jupyter Notebook 59 17

Repositories

  • pyensembl Public

    Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl

    Python 297 Apache-2.0 55 57 1 Updated Aug 18, 2022
  • varcode Public

    Library for manipulating genomic variants and predicting their effects

    Python 71 Apache-2.0 24 32 0 Updated Aug 9, 2022
  • gtfparse Public

    Parsing tools for GTF (gene transfer format) files

    Python 77 Apache-2.0 9 7 3 Updated Aug 1, 2022
  • mhcflurry Public

    Peptide-MHC I binding affinity prediction

    Python 148 Apache-2.0 46 5 0 Updated Jun 8, 2022
  • datacache Public

    Helpers for transparently downloading datasets

    Python 5 Apache-2.0 5 5 2 Updated Mar 29, 2022
  • mhctools Public

    Python interface to running command-line and web-based MHC binding predictors

    Python 68 Apache-2.0 14 16 2 Updated Dec 6, 2021
  • mhc2flurry Public

    MHC class II binding predictor, under development

    Jupyter Notebook 1 Apache-2.0 1 0 0 Updated Apr 26, 2021
  • phipkit Public

    PhIP-seq data analysis workflow

    Python 0 Apache-2.0 0 0 0 Updated Mar 6, 2021
  • cov-2-mutations-by-lineage Public

    Quick analysis to associate SARS-Cov-2 spike mutations with pangolin lineages using GISAID data

    Jupyter Notebook 1 Apache-2.0 0 1 0 Updated Mar 2, 2021
  • files Public

    Reference genomes and related files used across repos and analyses

    0 0 0 0 Updated Oct 27, 2020

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