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    109 repositories

    • ctims-matchminer-engine

      Public
      Python
      •
      Apache License 2.0
      •1•0•0•1•Updated Jan 31, 2025Jan 31, 2025

    • ctims

      Public
      CTIMS project
      CSS
      •
      Apache License 2.0
      •10•2•8•7•Updated Jan 30, 2025Jan 30, 2025

    • IRIS_TCR

      Public
      R
      •0•0•0•0•Updated Jan 29, 2025Jan 29, 2025

    • oncographer

      Public
      OncoGrapher: standardized, graph-based, clinical data abstraction tool leveraging the MOHCCN data standard
      TypeScript
      •1•5•0•0•Updated Jan 28, 2025Jan 28, 2025

    • CompareFragmentSize

      Public
      Compare fragment size of variant- and reference-allele containing reads in a BAM file
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 27, 2025Jan 27, 2025

    • cbioportal-docs

      Public
      0•0•0•0•Updated Jan 24, 2025Jan 24, 2025

    • hbc

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • CapTCR-TIL-Tracking

      Public
      R
      •0•0•0•0•Updated Jan 17, 2025Jan 17, 2025

    • INSPIRE_TCR

      Public
      Pan-cancer assessment of the tumour and systemic T-cell receptor repertoire dynamics in patients treated with pembrolizumab
      R
      •0•0•0•0•Updated Jan 15, 2025Jan 15, 2025

    • cbioportal

      Public
      cBioPortal for Cancer Genomics
      dockerfilestravis-ci-configurationpython-wrappermybatisspring-mvcrestful-webserviceskeycloak-adapter
      Java
      •
      GNU Affero General Public License v3.0
      •587•0•0•12•Updated Jan 14, 2025Jan 14, 2025

    • tigerdb

      Public
      TIGERdb: T-Cell and ImmunoGlobulin Epitope Receptor DataBase
      TypeScript
      •0•1•0•1•Updated Jan 14, 2025Jan 14, 2025

    • pipeline-suite

      Public
      Collection of pipelines for NGS analysis along with utilities
      Perl
      •2•4•0•0•Updated Jan 10, 2025Jan 10, 2025

    • matchminer-api

      Public
      A platform for matching patient-specific genomic profiles to precision cancer medicine clinical trials
      Python
      •13•0•0•0•Updated Jan 3, 2025Jan 3, 2025

    • MEDIPIPE

      Public
      HTML
      •
      MIT License
      •3•10•0•0•Updated Nov 28, 2024Nov 28, 2024

    • ctims-pages

      Public
      CTIMS Github Pages
      0•0•0•0•Updated Nov 26, 2024Nov 26, 2024

    • TRI_LRWGS_glioma

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Oct 29, 2024Oct 29, 2024

    • HCC_cfMeDIP

      Public
      R
      •0•1•0•0•Updated Sep 30, 2024Sep 30, 2024

    • fragmentomics

      Public
      Collection of fragmentomic analysis scripts
      R
      •2•11•0•0•Updated Jul 3, 2024Jul 3, 2024

    • TGL49_CHARM_LFS_Fragmentomics

      Public
      R
      •1•1•0•0•Updated Jul 3, 2024Jul 3, 2024

    • pughLab-softwareHub

      Public
      CSS
      •1•0•0•0•Updated Jun 28, 2024Jun 28, 2024

    • cbpOrganizer

      Public
      Tool to help cbioportal study owners to organize their studies for publishing to cbioportal
      Python
      •
      MIT License
      •1•0•4•0•Updated May 28, 2024May 28, 2024

    • ped_CapTCRseq

      Public
      Dynamics of peripheral T-cell repertoire in pediatric cancer patients over the course of chemoradiation
      ngstcr-repertoirepediatric-cancermixcr
      Jupyter Notebook
      •0•1•0•0•Updated May 23, 2024May 23, 2024

    • ORACLE_TCR

      Public
      R
      •0•0•0•0•Updated May 17, 2024May 17, 2024

    • IRIS_BulkTCR

      Public
      0•0•0•0•Updated Apr 16, 2024Apr 16, 2024

    • crescent

      Public
      The CanceR Single Cell ExpressioN Toolkit one-line-command applications.
      dockerweb-servertoolkitcancerdatabasesportalsingle-cell-rna-seqsingle-cell-analysis
      R
      •
      GNU General Public License v3.0
      •4•8•1•0•Updated Feb 20, 2024Feb 20, 2024

    • GSoC

      Public
      Google Summer of Code Ideas list
      0•0•3•0•Updated Feb 2, 2024Feb 2, 2024

    • matchengine-V2

      Public
      Open source engine for matching cancer patients to precision medicine clinical trials (V2).
      Python
      •
      Apache License 2.0
      •14•0•0•0•Updated Nov 22, 2023Nov 22, 2023

    • CNAqc

      Public
      CNAqc - Copy Number Alteration (CNA) Quality Check package
      R
      •
      GNU General Public License v3.0
      •8•0•0•0•Updated Nov 20, 2023Nov 20, 2023

    • rascal

      Public
      R package and Shiny app providing functions for scaling relative copy number to absolute values for shallow whole genome sequencing of cancer samples.
      R
      •
      MIT License
      •4•0•0•0•Updated Nov 3, 2023Nov 3, 2023

    • paper-inspire-cfmedip

      Public
      Accompanying code for INSPIRE cfMeDIP-seq manuscript
      HTML
      •0•1•0•0•Updated Oct 2, 2023Oct 2, 2023