R scripts used for visualization of RNA-seq data
These scripts were used for analysis of RNA-seq samples treated with a diverse collection of drugs. To use these scripts, please carefully modify file paths to reflect the GSEA output of your local file structure, changing path names etc.
VisualizeRNAseq/gatherGSEA.R The scripts assume a limited gene set across a large number of samples all in the same GSEA output folder.
The first visualization tool looks at Enrichment Scores for a set of gene sets vs. a set of samples:
The second part of the script uses this same output but zooms in on a single gene set, looking at the shape of the running ES across multiple conditions:
