gsea-pathway-analyzer
// Gene Set Enrichment Analysis skill for functional annotation and pathway interpretation
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updated:March 4, 2026
SKILL.mdreadonly
SKILL.md Frontmatter
namegsea-pathway-analyzer
descriptionGene Set Enrichment Analysis skill for functional annotation and pathway interpretation
allowed-toolsRead,Write,Glob,Grep,Edit,WebFetch,WebSearch,Bash
metadata[object Object]
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)