pathway-enrichment

What problem does it solve?

This Skill helps you turn a gene list or ranked gene table into biologically meaningful pathway, GO term, and gene-set enrichment results, so you can move from raw hits to interpretable biology.

Core Features & Use Cases

• Over-representation analysis: Test thresholded hit lists for enriched GO, KEGG, Reactome, WikiPathways, and MSigDB signatures.
• Ranked enrichment analysis: Run preranked GSEA when you have a full ordered gene score table instead of a cutoff-based list.
• Interpretation and reporting: Handle gene-ID mapping, background selection, multiple-testing correction, redundancy reduction, and publication-ready summaries.
• Use case: A researcher with differential expression output from RNA-seq can identify which immune, signaling, or metabolic pathways are most affected and present the results in a clean table and dotplot.

Quick Start

Ask for an enrichment analysis on your gene list or ranked genes and specify the organism, preferred gene-set libraries, and whether you want ORA or GSEA results.