ngs-chip-cutrun-peaks-qc Skill
Run or plan ChIP-seq, CUT&RUN, or CUT&Tag QC, control handling, spike-in, peak calling, broad-vs-narrow target selection, replicate, bigWig, and differential binding workflows. Published by openai in plugins.
What is ngs-chip-cutrun-peaks-qc Skill?
Run or plan ChIP-seq, CUT&RUN, or CUT&Tag QC, control handling, spike-in, peak calling, broad-vs-narrow target selection, replicate, bigWig, and differential binding 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-chip-cutrun-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-chip-cutrun-peaks-qc/SKILL.md
What it does
Run or plan ChIP-seq, CUT&RUN, or CUT&Tag QC, control handling, spike-in, peak calling, broad-vs-narrow target selection, replicate, bigWig, and differential binding workflows.
Skill instructions
ChIP/CUT&RUN Peaks QC Use this skill for antibody-targeted enrichment workflows: ChIP-seq, CUT&RUN, or CUT&Tag. Use ngs-atacseq-peaks-qc for ATAC-seq. Essential Inputs Confirm: - assay: ChIP-seq, CUT&RUN, or CUT&Tag - target class: transcription factor, histone mark, chromatin regulator, or custom target - FASTQ/BAM inputs and paired-end status - input DNA, IgG, no-antibody, or spike-in controls - organism, genome build, blacklist, and spike-in genome if used - biological replicates, conditions, batches, and sample metadata - desired endpoint: QC, peaks, bigWigs, consensus peaks, or differential binding Route Use nf-core/chipseq for ChIP-seq and nf-core/cutandrun for CUT&RUN/CUT&Tag when they fit the assay. Use direct MACS2 only for prepared BAMs with known control and duplicate policy. Preflight command: bash python plugins/ngs-analysis/scripts/ngspreflight.py --pipeline chipcutrunpeaksqc --emit-install-plan For compact FASTQ intake/QC, use the shared epigenomics execution package: ba
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Frequently asked questions
What is ngs-chip-cutrun-peaks-qc?
ngs-chip-cutrun-peaks-qc is a open-source AI agent skill with Copy skill directory. Run or plan ChIP-seq, CUT&RUN, or CUT&Tag QC, control handling, spike-in, peak calling, broad-vs-narrow target selection, replicate, bigWig, and differential binding workflows.
Who is ngs-chip-cutrun-peaks-qc best for?
ngs-chip-cutrun-peaks-qc is best for reusing agent instructions, scripts, and references, data analysis workflows.
How do I install ngs-chip-cutrun-peaks-qc?
Install or run ngs-chip-cutrun-peaks-qc using Copy skill directory. Check ngs-chip-cutrun-peaks-qc for the latest setup command.
Is ngs-chip-cutrun-peaks-qc actively maintained?
ngs-chip-cutrun-peaks-qc may need a closer maintenance check before production use.
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