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bio-pathway-enrichment-visualization

Generate publication-ready dotplots, barplots, and network plots from clusterProfiler enrichment results.

Updated Aug 27, 2026
Search Tags:#GSEA#ggplot2#enrichplot#clusterProfiler#enrichment-visualization#GO-enrichment#KEGG-enrichment
One-click install
npx skills add https://github.com/stellaromics/fast-bioinfo --skill bio-pathway-enrichment-visualization-stellaromics
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: bio-pathway-enrichment-visualization
Source: https://github.com/stellaromics/fast-bioinfo/tree/main/.claude/agents/spatial-analysis/skills/bio-pathway-analysis-enrichment-visualization
Command: npx skills add https://github.com/stellaromics/fast-bioinfo --skill bio-pathway-enrichment-visualization-stellaromics

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

Visualize enrichment analysis results with publication-quality plots derived from clusterProfiler and enrichplot, enabling clear communication of pathways and gene sets.

Core Features & Use Cases

  • Generate dotplots, barplots, cnetplots, emapplots, gseaplot2, ridgeplot, and treeplot from enrichment results.
  • Create publication-ready figures for GO, KEGG, and GSEA analyses, suitable for manuscripts and presentations.
  • Provide ready-to-run prompts and examples to reproduce figures from standard outputs.

Quick Start

Install the required R packages and run example plotting commands to reproduce enrichment figures.

Frequently Asked Questions about bio-pathway-enrichment-visualization

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I create publication-ready GO and KEGG enrichment plots from clusterProfiler outputs?▼

Generate publication-ready enrichment plots by processing clusterProfiler outputs to produce ggplot2-compatible figures, including dotplots, barplots, and network plots, for GO and KEGG analyses.

What types of GSEA visualization figures can I generate for my manuscript?▼

Generate multiple GSEA visualization figures for manuscripts, including dotplots, barplots, cnetplots, emapplots, gseaplot2, ridgeplots, and treeplots from standard enrichment analysis results.

Do I need R with enrichplot installed to visualize GSEA results?▼

Yes, an R environment with clusterProfiler and enrichplot installed is required to visualize GSEA results and output ggplot2-compatible figures that can be saved as PDFs or PNGs.

What's the best way to plot GO enrichment network plots from enrichment analysis?▼

Plot GO enrichment network visualizations by applying enrichplot functions to clusterProfiler data, producing cnetplots and emapplots that clearly communicate pathway relationships.

Can I save enrichment dotplots and barplots directly as PDF or PNG files?▼

Yes, you can save enrichment dotplots and barplots as PDFs or PNGs, because the Skill generates ggplot2-compatible figures suitable for publication-ready manuscripts and presentations.

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