tf-footprint-differential-analysis
CommunityQuantify TF occupancy from ATAC footprints.
Authortony-zhelonkin
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This capability identifies and quantifies transcription factor occupancy from ATAC-seq footprint analyses, enabling rigorous validation of open-chromatin signals by measuring actual TF binding across conditions.
Core Features & Use Cases
- TOBIAS-based pseudobulk workflow (ATACorrect, ScoreBigwig, BINDetect) for differential TF binding.
- Optional support for HINT-ATAC and Signac Footprint() visualization to corroborate occupancy findings.
- Use cases include validating regulatory TFs between WT vs KO or treated vs control and generating occupancy-focused reports.
Quick Start
Run footprints differential analysis to compare TF binding across conditions using pseudobulk ATAC BAMs.
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: tf-footprint-differential-analysis Download link: https://github.com/tony-zhelonkin/SciAgent-toolkit/archive/main.zip#tf-footprint-differential-analysis Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
Agent Skills Search Helper
Install a tiny helper to your Agent, search and equip skill from 471,000+ vetted skills library on demand.