hic-compartments-calling
CommunityAutomate Hi-C compartments calling with PCA.
AuthorBIsnake2001
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This workflow automates end-to-end Hi-C compartments analysis by performing PCA-based calling to identify A/B compartments from contact maps and generate PC1 scores and visualization-ready outputs.
Core Features & Use Cases
- PCA-based compartment calling on .mcool, .cool, or .hic Hi-C data.
- Generates PC1 compartment scores and visualization assets (e.g., BigWig tracks and saddle plots) for genome browsers.
- Produces reproducible results with a structured MCP-tool workflow including genome localization, chromosome-name harmonization, view creation, GC binning, and saddle analysis.
Quick Start
Provide a sample Hi-C dataset and run the workflow to generate PC1 compartments and visualization outputs.
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 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: hic-compartments-calling Download link: https://github.com/BIsnake2001/ChromSkills/archive/main.zip#hic-compartments-calling Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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