Generating Correlated Data for Omics Simulation

This repository gives the source code for generating all figures and documents for our manuscript "Generating Correlation Data for Omics Simulation", see our PLOS Comp Bio publication.

Dependencies

To run this, you need a system with the following:

• Python 3.10
• Apptainer 1.3

Then a virtual environment with the appropriate python packages must be made:

python -m venv venv
source venv/bin/activate
pip install -r requirements.txt

Afterwards, the manuscript can be made using Snakemake and apptainer, see the run_pipeline.sh file for an example command that was tailored to our compute cluster.