ScFGSEA Process Configuration

Purpose

Performs fast Gene Set Enrichment Analysis (GSEA) on single-cell data using fgsea R package. Identifies enriched biological pathways by ranking genes based on differential expression between cell groups. Generates enrichment scores, significance metrics, and publication-ready visualizations.

When to Use

• After clustering: Functional interpretation of cluster differences
• Pathway analysis: Identify biological processes driving cell type differentiation
• Comparative analysis: Compare gene expression patterns between groups (e.g., disease vs control)
• Subgroup analysis: Run GSEA on metadata subsets (diagnosis, treatment, etc.)
• TCR integration: Analyze pathway enrichment in TCR-selected clones/clusters

Configuration Structure

Process Enablement

[ScFGSEA]
cache = true