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@pdxgx

pdxgx

Computational biology software developed in collaborations led by Abhi Nellore and Reid Thompson

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  1. neoepiscope neoepiscope Public

    predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data

    Python 26 17

  2. pepsickle pepsickle Public

    A context aware tool for proteasomal cleavage predictions

    Python 10 2

  3. covid19 covid19 Public

    covid19 exploration

    R 9 4

  4. immunorx_response_pipeline immunorx_response_pipeline Public

    Python 4 1

  5. ri-tests ri-tests Public

    Supporting materials for "Retained introns in long RNA-seq reads are not reliably detected in sample-matched short reads"

    R 4

  6. neoepiscope-paper neoepiscope-paper Public

    Scripts for reproducing results from neoepiscope paper

    Python 2 1

Repositories

Showing 9 of 9 repositories
  • pepsickle Public

    A context aware tool for proteasomal cleavage predictions

    pdxgx/pepsickle’s past year of commit activity
    Python 10 2 0 0 Updated Jul 30, 2024
  • neoepiscope Public

    predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data

    pdxgx/neoepiscope’s past year of commit activity
    Python 26 17 5 0 Updated Sep 13, 2023
  • intronomer Public

    Tool for calculating intron persistence, as defined in https://doi.org/10.1186/s13059-022-02789-6

    pdxgx/intronomer’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Feb 12, 2023
  • ri-tests Public

    Supporting materials for "Retained introns in long RNA-seq reads are not reliably detected in sample-matched short reads"

    pdxgx/ri-tests’s past year of commit activity
    R 4 MIT 0 0 0 Updated Nov 3, 2022
  • pepsickle-paper Public

    scripts for data pulls and analysis related to the pepsickle proteasomal cleavage paper

    pdxgx/pepsickle-paper’s past year of commit activity
    Python 1 1 0 0 Updated Jul 28, 2022
  • covid19 Public

    covid19 exploration

    pdxgx/covid19’s past year of commit activity
    R 9 MIT 4 1 0 Updated Apr 21, 2021
  • immunorx_response_pipeline Public
    pdxgx/immunorx_response_pipeline’s past year of commit activity
    Python 4 MIT 1 0 0 Updated Jan 28, 2020
  • neoepiscope-paper Public

    Scripts for reproducing results from neoepiscope paper

    pdxgx/neoepiscope-paper’s past year of commit activity
    Python 2 MIT 1 0 0 Updated Oct 8, 2019
  • drylabyrinth.github.io Public Forked from drylabyrinth/drylabyrinth.github.io

    Website for drylabyrinth, the ohsu computational forum

    pdxgx/drylabyrinth.github.io’s past year of commit activity
    HTML 0 Apache-2.0 18 0 0 Updated Feb 7, 2019

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