gsea-pathway-analyzer

# GSEA Pathway Analyzer Skill ## Purpose Enable Gene Set Enrichment Analysis for functional annotation and pathway interpretation. ## Capabilities - Preranked GSEA execution - Gene ontology enrichment - KEGG/Reactome pathway analysis - Custom gene set support - Leading edge analysis - Publication-ready visualizations ## Usage Guidelines - Rank genes appropriately for analysis type - Select relevant gene set collections - Apply multiple testing correction - Identify leading edge genes for interpretation - Generate clear visualizations - Document gene set versions ## Dependencies - GSEA - clusterProfiler - g:Profiler - Enrichr ## Process Integration - RNA-seq Differential Expression Analysis (rnaseq-differential-expression) - Single-Cell RNA-seq Analysis (scrnaseq-analysis) - Multi-Omics Data Integration (multi-omics-integration)