Repositories list

• ctims

  Public
  CTIMS project

  CSS

  •

  Apache License 2.0

  •10•3•8•4•Updated Jul 16, 2025Jul 16, 2025

• tigerdb

  Public
  TIGERdb: T-Cell and ImmunoGlobulin Epitope Receptor DataBase

  TypeScript

  •0•1•0•2•Updated Jul 11, 2025Jul 11, 2025

• pipeline-suite

  Public
  Collection of pipelines for NGS analysis along with utilities

  Perl

  •2•4•0•0•Updated Jul 10, 2025Jul 10, 2025

• ctims-matchminer-engine

  Public
  Python

  •

  Apache License 2.0

  •1•0•0•0•Updated Jun 24, 2025Jun 24, 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 Jun 22, 2025Jun 22, 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 May 26, 2025May 26, 2025

• matchminer-api

  Public
  A platform for matching patient-specific genomic profiles to precision cancer medicine clinical trials

  Python

  •13•0•0•0•Updated May 21, 2025May 21, 2025

• crescent

  Public
  The CanceR Single Cell ExpressioN Toolkit one-line-command applications.

  dockerweb-servertoolkit+ 5cancerdatabasesportalsingle-cell-rna-seqsingle-cell-analysis

  R

  •

  GNU General Public License v3.0

  •4•9•1•0•Updated May 14, 2025May 14, 2025

• MEDIPIPE

  Public
  HTML

  •

  MIT License

  •4•11•0•0•Updated May 13, 2025May 13, 2025

• SpondyloArthritis_TCR

  Public
  R

  •0•0•0•0•Updated May 5, 2025May 5, 2025

• wm-cfwgs-mrd

  Public
  This repository contains all R code and figure generation workflows used in Chow S., Abelman D. et al. (2025), Measurement of Bone Marrow Tumour Burden and Minimal Residual Disease in Waldenström Macroglobulinemia through Cell‑free Whole Genome Sequencing.

  R

  •

  MIT License

  •0•0•0•0•Updated May 5, 2025May 5, 2025

• oncographer

  Public
  OncoGrapher: standardized, graph-based, clinical data abstraction tool leveraging the MOHCCN data standard

  TypeScript

  •1•5•0•0•Updated Apr 17, 2025Apr 17, 2025

• IRIS_TCR

  Public
  R

  •0•0•0•0•Updated Mar 21, 2025Mar 21, 2025

• IOKIN_TCR-and-ctDNA

  Public
  R

  •0•0•0•0•Updated Mar 16, 2025Mar 16, 2025

• COMBAT

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Feb 14, 2025Feb 14, 2025

• MetaMutationalSigs

  Public
  https://hub.docker.com/r/pp535/metamutationalsigs

  HTML

  •2•0•0•0•Updated Feb 10, 2025Feb 10, 2025

• hbc

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Feb 3, 2025Feb 3, 2025

• cbioportal-docs

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

• CapTCR-TIL-Tracking

  Public
  R

  •0•0•0•0•Updated Jan 17, 2025Jan 17, 2025

• cbioportal

  Public
  cBioPortal for Cancer Genomics

  dockerfilestravis-ci-configurationpython-wrapper+ 4mybatisspring-mvcrestful-webserviceskeycloak-adapter

  Java

  •

  GNU Affero General Public License v3.0

  •694•1•0•12•Updated Jan 14, 2025Jan 14, 2025

• 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

  •3•11•0•0•Updated Jul 3, 2024Jul 3, 2024

• TGL49_CHARM_LFS_Fragmentomics

  Public
  R

  •2•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-cancer+ 1mixcr

  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