chromvar-motif-accessibility
CommunityInfer TF activity from motif accessibility.
Authortony-zhelonkin
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Identifies transcription factor activity by computing bias-corrected per-cell motif accessibility deviation scores from ATAC data, enabling regulatory insights without RNA measurements.
Core Features & Use Cases
- Computes bias-corrected motif deviation scores for single cells or bulk ATAC data.
- Enables transcription factor activity inference, motif variability analysis, and differential accessibility studies.
- Supports integration with Signac/ArchR workflows, various motif databases (JASPAR, chromVARmotifs), and downstream clustering.
Quick Start
Install chromVAR and dependencies, load ATAC counts, and run computeDeviations to obtain per-motif per-cell deviation scores.
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 Claude Code Installation
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Please help me install this Skill: Name: chromvar-motif-accessibility Download link: https://github.com/tony-zhelonkin/SciAgent-toolkit/archive/main.zip#chromvar-motif-accessibility Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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