integrative-DMR-DEG
CommunityLink methylation shifts to gene expression.
AuthorBIsnake2001
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This skill performs correlation analysis between differential methylation and differential gene expression, identifying genes with coordinated epigenetic regulation. It provides preprocessing and integration workflows, using promoter-level methylation–expression relationships.
Core Features & Use Cases
- Prepare the DMR regions into a 6-column standard BED file for HOMER annotation.
- Annotate the differential methylation regions to the gene promoter.
- Preprocess differential methylation and expression tables into a standard format.
- Integrate methylation and expression data by promoter proximity.
- Calculate the correlation between methylation change and expression fold change.
- Classify patterns such as hypermethylation–downregulation or hypomethylation–upregulation.
- Use cases include combining METILENE DMR results with DESeq2 DEG results to identify coordinated epigenetic regulation.
Quick Start
Prepare your dmr_results.txt and dge_result.csv files, then run the integrative-DMR-DEG workflow to generate correlation results.
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: integrative-DMR-DEG Download link: https://github.com/BIsnake2001/ChromSkills/archive/main.zip#integrative-dmr-deg Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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