Repositories list

• ActiveLearning_MechanisticModels_CXCL9

  Public
  R

  •0•0•0•0•Updated Sep 9, 2025Sep 9, 2025

• RaCInG

  Public
  The random graph model to infer cell-cell communication networks based on bulk RNA-seq data. Contains the code used for the "Mathematically mapping the network of cells in the tumor microenvironment" paper.

  HTML

  •

  Apache License 2.0

  •2•6•0•0•Updated Jul 9, 2025Jul 9, 2025

• SysBioOncology.github.io

  Public
  CSS

  •0•0•0•0•Updated Jun 5, 2025Jun 5, 2025

• SPoTLIghT

  Public
  SPoTLIghT, a computational framework to extract interpretable features of the spatial distribution of multiple cell types by combining unannotated pathology images with bulk transcriptomics.

  Python

  •

  Apache License 2.0

  •0•7•0•0•Updated May 21, 2025May 21, 2025

• spatial_features_manuscript

  Public
  Code used in the paper 'Integrating histopathology and transcriptomics for spatial tumor microenvironment profiling in a melanoma case study' by Lapuente-Santana, Kant & Eduati.

  HTML

  •0•3•0•0•Updated Nov 8, 2024Nov 8, 2024

• PCABM_ADT

  Public
  MATLAB

  •

  MIT License

  •0•2•0•0•Updated Sep 25, 2024Sep 25, 2024

• BilayerMicrofluidicsAnalysis_JoVE

  Public
  Code used to read and analysis the fluorescent plugs data for the JoVE paper

  R

  •

  MIT License

  •0•0•0•0•Updated Aug 21, 2023Aug 21, 2023

• ABM_prostate_cancer_development

  Public
  Code used in the paper "Multicellular agent-based model of prostate tumor onset and development" by Passier et al.

  MATLAB

  •

  MIT License

  •0•1•0•0•Updated Feb 14, 2023Feb 14, 2023

• Lungmarkerstudy_diagnosticalgorithm

  Public
  Code used in the paper 'Liquid biopsy-based decision support algorithms for diagnosis and subtyping of lung cancer' by Visser et al.

  Python

  •

  GNU General Public License v3.0

  •3•1•0•0•Updated Oct 24, 2022Oct 24, 2022