spatial_enrichment
OfficialUncover biological pathways in spatial data.
AuthorTianGzlab
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill automates the complex process of identifying biological pathways and gene sets within spatial transcriptomics data, which would otherwise require manual gene list extraction and external tool usage.
Core Features & Use Cases
- Automated Enrichment Analysis: Performs Over-representation Analysis (ORA) or Gene Set Enrichment Analysis (GSEA) on spatial transcriptomics data.
- Built-in Gene Sets: Utilizes curated gene sets (Hallmark, GO, KEGG, Reactome) for immediate analysis.
- Use Case: After identifying distinct cell clusters in your spatial data, use this Skill to automatically determine which biological pathways are significantly active within each cluster, aiding in the interpretation of tissue microenvironments.
Quick Start
Run pathway enrichment analysis on the provided spatial data file 'preprocessed.h5ad'.
Dependency Matrix
Required Modules
scanpygseapy
Components
scriptsreferencesassets
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: spatial_enrichment Download link: https://github.com/TianGzlab/OmicsClaw/archive/main.zip#spatial-enrichment Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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