Repositories list

• ImageOmics-Foundation-Model

  Public
  This is the working repo of work related to building a ginormous multimodal dataset (different types of patient imaging and -omics data) to develop a foundation model for downstream tasks related to multiple cancer types.

  Jupyter Notebook

  •0•0•0•0•Updated Nov 28, 2025Nov 28, 2025

• ATAClone

  Public

  TrigosTeam/ATAClone’s past year of commit activity
  ATAClone uses single-cell ATAC-seq to identify tumour 'clones' with shared copy number profiles, then estimates absolute copy number for each clone jointly

  R

  •0•0•0•0•Updated Nov 25, 2025Nov 25, 2025

• hist2st-inference-pipeline

  Public
  Universal inference pipeline for Hist2ST model with comprehensive spatial transcriptomics analysis tools

  Python

  •0•1•0•0•Updated Sep 2, 2025Sep 2, 2025

• hest-dataset-analysis

  Public
  Comprehensive analysis and visualization toolkit for HEST-1k spatial transcriptomics dataset with reproducible workflows

  Python

  •

  Other

  •0•0•0•0•Updated Aug 31, 2025Aug 31, 2025

• Recurrent-Tumour-Single-Cell

  Public
  HTML

  •0•0•0•0•Updated Jul 20, 2025Jul 20, 2025

• Spatial_Converter

  Public
  R

  •1•3•0•0•Updated Jul 15, 2025Jul 15, 2025

• SPIAT

  Public
  R

  •

  Artistic License 2.0

  •8•25•5•0•Updated Mar 16, 2025Mar 16, 2025

• ABACBS_Workshop_SPIAT_spaSim

  Public
  More about the ABACBS workshop (2023) here!

  HTML

  •0•0•0•0•Updated Dec 1, 2023Dec 1, 2023

• Posts

  Public archive
  This is a space to share information and ask questions.

  HTML

  •0•0•0•0•Updated Jun 21, 2023Jun 21, 2023

• SPIAT-shiny

  Public
  R

  •2•0•0•0•Updated Jun 21, 2023Jun 21, 2023

• TrigosTeam.github.io

  Public
  0•0•0•0•Updated Jun 1, 2023Jun 1, 2023

• spaSim

  Public
  R

  •2•2•0•0•Updated May 23, 2023May 23, 2023

• SPIATspaSimNCCodeShare

  Public
  R

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Apr 24, 2023Apr 24, 2023

• CX5461_translation_reprogramming

  Public
  R

  •2•0•0•0•Updated Mar 11, 2022Mar 11, 2022

• CX-5461-sensitivity-signature-in-ovarian-cancer

  Public
  CX-5461 sensitivity signature in ovarian tumor samples

  R

  •1•0•0•0•Updated Mar 11, 2022Mar 11, 2022

• Evolutionary-analysis-of-somatic-mutations-in-cancer

  Public
  R

  •

  MIT License

  •5•0•0•0•Updated Feb 27, 2019Feb 27, 2019

• Evolutionary-analysis-of-cancer-transcriptomes

  Public
  R

  •1•0•0•0•Updated Sep 3, 2018Sep 3, 2018