bio-workflows-atacseq-pipeline
CommunityEnd-to-end ATAC-seq: FASTQ to footprints.
Authorya-way
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Process ATAC-seq data from raw FASTQ files to identify accessible regions, quantify differential accessibility, and optionally perform transcription factor footprinting for regulatory insights.
Core Features & Use Cases
- End-to-end ATAC-seq workflow including QC, alignment, BAM processing, peak calling, QC metrics, differential analysis, and footprinting.
- Flexible analyses across multiple samples and conditions, enabling discovery of condition-specific regulatory regions and TF activity.
- Real-world use case: a lab processes treated and control samples to compare accessibility and infer TF dynamics.
Quick Start
Run the ATAC-seq pipeline on your paired-end FASTQ samples to generate peaks, QC metrics, and optional footprints.
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 Claude Code Installation
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Please help me install this Skill: Name: bio-workflows-atacseq-pipeline Download link: https://github.com/ya-way/cytoclaw-skills/archive/main.zip#bio-workflows-atacseq-pipeline Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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