ngs-atacseq-peaks-qc Skill
Run or plan ATAC-seq QC, alignment, TSS enrichment, fragment-size, blacklist, peak-calling, consensus peak, and differential accessibility workflows. Published by openai in plugins.
What is ngs-atacseq-peaks-qc Skill?
Run or plan ATAC-seq QC, alignment, TSS enrichment, fragment-size, blacklist, peak-calling, consensus peak, and differential accessibility workflows. Published by openai in plugins. This profile combines repository metadata with install, compatibility, and usage signals so developers can quickly decide whether it fits their agent workflow before opening the source repository.
Automated repository signals based on public metadata such as recency, license, installation evidence, and adoption. These are not a security audit or endorsement.
Key capabilities
- Includes SKILL.md support
- Reusable instructions support
- Data analysis
- Data analysis use cases
Technical details
- Install or run with Copy skill directory
When to use ngs-atacseq-peaks-qc Skill
- Use it for data analysis.
Built with
Editorial notes
Source
- Creator: openai
- Repository: openai/plugins
- Skill file: plugins/ngs-analysis/skills/ngs-atacseq-peaks-qc/SKILL.md
What it does
Run or plan ATAC-seq QC, alignment, TSS enrichment, fragment-size, blacklist, peak-calling, consensus peak, and differential accessibility workflows.
Skill instructions
ATAC-seq Peaks QC Use this skill for ATAC-seq accessibility analysis from FASTQ or BAM. If the assay is ChIP-seq, CUT&RUN, CUT&Tag, or antibody-targeted enrichment, use ngs-chip-cutrun-peaks-qc. Essential Inputs Confirm: - FASTQ/BAM inputs and paired-end status - organism, genome build, blacklist, and mitochondrial contig names - biological replicates, conditions, batches, and sample metadata - whether the target is QC only, peaks, consensus peaks, bigWigs, or differential accessibility - whether Tn5 shifting is handled by the chosen workflow - desired peak caller and downstream matrix generation Route Prefer nf-core/atacseq for full reproducible processing. Use direct MACS2 only when BAMs are already aligned, duplicate/blacklist handling is known, and the user wants focused peak calling. Preflight command: bash python plugins/ngs-analysis/scripts/ngspreflight.py --pipeline atacseqpeaksqc --emit-install-plan For compact read-level intake/QC, use the shared epigenomics execution package
Explore related resources
Frequently asked questions
What is ngs-atacseq-peaks-qc?
ngs-atacseq-peaks-qc is a open-source AI agent skill with Copy skill directory. Run or plan ATAC-seq QC, alignment, TSS enrichment, fragment-size, blacklist, peak-calling, consensus peak, and differential accessibility workflows.
Who is ngs-atacseq-peaks-qc best for?
ngs-atacseq-peaks-qc is best for reusing agent instructions, scripts, and references, data analysis workflows.
How do I install ngs-atacseq-peaks-qc?
Install or run ngs-atacseq-peaks-qc using Copy skill directory. Check ngs-atacseq-peaks-qc for the latest setup command.
Is ngs-atacseq-peaks-qc actively maintained?
ngs-atacseq-peaks-qc may need a closer maintenance check before production use.
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