Scrna Seq Qc — Agent Skill by OpenAI

From the author

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.

— the description by OpenAI

Install

Get the skill from its source (we cannot redistribute it):
https://github.com/openai/plugins/tree/d420d13051bffe4543ed39e30fa46b87148e47dd/plugins/ngs-analysis/skills/scrna-seq-qc

Documentation by OpenAI

The licence of this skill does not allow us to copy its documentation. Read it at the source

Files

SKILL.md(opens on GitHub)Not mirrored: opens on GitHub8.1 KiB
agents/openai.yaml(opens on GitHub)Not mirrored: opens on GitHub267 B
references/qc-annotation-umap-heuristics.md(opens on GitHub)Not mirrored: opens on GitHub8.6 KiB

Requirements and compatibility

Written for: OpenAI Codex

Works with: Claude Code, Claude apps, OpenAI Codex, GitHub Copilot, Cursor, Gemini CLI, Kiro, OpenCode, Goose, Amp, Roo Code, JetBrains Junie, Factory Droid, Devin (ex-Windsurf), Mistral Vibe, OpenHands, Letta

“Works with” means the tool reads the open Agent Skills format; a skill written for one tool may use features others lack.

Needs: Needs Python

Security

No issues found by our static scan· No issues found

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