CanSig: a benchmarking tool for cancer cell state discovery from single-cell RNA-seq data

This repository contains the complete set of intermediate results, analysis scripts, and data processing pipelines used in our paper "CanSig: a benchmarking tool for cancer cell state discovery from single-cell RNA-seq data." Repository Structure 3ca.csv: 3ca metadata TCGA_data/: The Cancer Genome Atlas dataset files annotations/: Gene signature files configs/: Configuration files for analysis pipelines data/: Raw datasets envs/: Environment configuration files figures/: Generated figures and visualizations profiles/: Execution profiles for cluster execution results/: Analysis outputs and intermediate results scripts/: Analysis and processing scripts survival/: Survival analysis data and results