bio-pathway-gsea - Gene Set Enrichment Analysis with clusterProfiler
Performs GSEA on ranked gene lists using clusterProfiler to detect coordinated expression changes without arbitrary cutoffs.
Tags
Updated: 2026-03-19Capabilities
Typical Inputs
Typical Outputs
What this skill does
- run GSEA analysis
- perform GO enrichment
- perform KEGG enrichment
- analyze custom gene sets
- read GMT files
- export analysis results
Inputs
- differential expression results
- ranked gene list
- organism database
- GMT file
- MSigDB gene sets
Outputs
- GSEA results
- enrichment scores
- p-values
- core enrichment genes
- CSV files
Requirements
- R environment
- clusterProfiler package
- organism database
- gene ID mapping