Individual skill

scrna-seq-qc

Process, quality-control, annotate, and visualize single-cell or single-nucleus RNA-seq datasets across tissues and species. Use when Codex needs to build, adapt, or review a general scRNA-seq QC pipeline; choose dataset-appropriate cell-level filters from QC distributions; run required scDblFinder-based doublet and ambient-RNA filtering; annotate cells with matched references or marker-based fallbacks; or generate global and per-group UMAP visualizations for large scRNA-seq datasets.

plugins/ngs-analysis/skills/scrna-seq-qc/SKILL.md

Source commit b767f8fa3be1a22b093127dd59956c91ecffca9d

What was checked

Matches the observed repository HEAD

Yes

Scanner rules are current

Yes

Repository scan complete

No

Skill scan complete

No

Observed behavior

Network or broad shell

Last checked

Nov 6, 2026

These are observations at the recorded commit, not a guarantee of safety. Review the source before running it.

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