ngs-scrna-seq Skill
Route single-cell or single-nucleus RNA-seq FASTQs to public count-generation workflows and defer post-count matrix QC, annotation, clustering, and UMAP analysis to the embedded scrna-seq-qc skill. Published by openai in plugins.
What is ngs-scrna-seq Skill?
Route single-cell or single-nucleus RNA-seq FASTQs to public count-generation workflows and defer post-count matrix QC, annotation, clustering, and UMAP analysis to the embedded scrna-seq-qc skill. 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-scrna-seq Skill
- Use it for data analysis.
Built with
Editorial notes
Source
- Creator: openai
- Repository: openai/plugins
- Skill file: plugins/ngs-analysis/skills/ngs-scrna-seq/SKILL.md
What it does
Route single-cell or single-nucleus RNA-seq FASTQs to public count-generation workflows and defer post-count matrix QC, annotation, clustering, and UMAP analysis to the embedded scrna-seq-qc skill.
Skill instructions
Single-cell RNA-seq Use this skill for scRNA-seq or snRNA-seq kickoff from FASTQs, Cell Ranger-style outputs, matrices, .h5, .h5ad, or .rds. This skill owns upstream intake and FASTQ-to-count routing; post-count QC, annotation, clustering, and UMAPs must route to the embedded scrna-seq-qc skill. Essential Inputs Confirm: - input type: FASTQ, count matrix, .h5, .h5ad, or .rds - assay: single-cell or single-nucleus - chemistry or barcode/UMI layout - organism and reference - expected cells per sample when available - sample, donor, batch, and channel metadata - desired endpoint: count matrix only, QC, clustering, annotation, UMAP, or differential abundance/expression Public Default For FASTQs, prefer public alternatives: - nf-core/scrnaseq - STARsolo - kallisto-bustools via kb-python - alevin-fry Use 10x Cell Ranger only when the user explicitly wants vendor-standard output and has accepted the 10x EULA. Implementation Sequence Treat scRNA as three ordered rows in the plugin state and ex
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Frequently asked questions
What is ngs-scrna-seq?
ngs-scrna-seq is a open-source AI agent skill with Copy skill directory. Route single-cell or single-nucleus RNA-seq FASTQs to public count-generation workflows and defer post-count matrix QC, annotation, clustering, and UMAP analysis to the embedded scrna-seq-qc skill.
Who is ngs-scrna-seq best for?
ngs-scrna-seq is best for reusing agent instructions, scripts, and references, data analysis workflows.
How do I install ngs-scrna-seq?
Install or run ngs-scrna-seq using Copy skill directory. Check ngs-scrna-seq for the latest setup command.
Is ngs-scrna-seq actively maintained?
ngs-scrna-seq may need a closer maintenance check before production use.
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