scGPT
Embed and annotate single-cell expression data with scGPT, a foundation model for single-cell biology. Use this skill when: (1) Producing cell embeddings from an AnnData for clustering/integration, (2) Zero-shot or fine-tuned cell-type annotation, (3) Gene-level representation for perturbation/GRN t…
Install / Use
npx skills add aipoch/open-science --skill scgptInstalls into whichever agent you are using.
SKILL.md
Installable skill definition
Quality Score
Category
AI & Machine LearningSupported Platforms
Tags
Our assessment of scGPT
scGPT scores 87/100 on our quality scale, 346th of 744 AI & Machine Learning skills we index (top 47%).
We have not analysed the SKILL.md file itself yet, so the content part of this score is an estimate until our crawler reaches it.
With 4,918 GitHub stars, it is one of the more widely adopted skills in the catalogue.
Maintenance, license and trust
- The repository was last updated 2 days ago, so scGPT is actively maintained.
- It is released under the Apache-2.0 license, a permissive license that allows use, modification and commercial use with attribution.
- Its trust signals score 100/100, with no cautions. These come from repository metadata, not a code audit — read the skill file before letting an agent act on it.
scGPT compared with similar skills
All 4 of these similar skills score higher than scGPT; compare them before choosing.
| Skill | Score | Stars | Updated | Format |
|---|---|---|---|---|
| scGPT (this skill)by aipoch | 87 | 4.9k | 2d ago | SKILL.md |
| claude-memby thedotmack | 100 | 94.7k | today | CLAUDE.md |
| Understand-Anythingby Egonex-AI | 100 | 84.3k | 15d ago | CLAUDE.md |
| headroomby headroomlabs-ai | 100 | 73.9k | today | CLAUDE.md |
| CowAgentby zhayujie | 100 | 47.1k | today | CLAUDE.md |
Frequently asked questions
- How do I install scGPT?
- Run
npx skills add aipoch/open-science --skill scGPT. The install tabs above show the steps for each supported agent. - Which AI agents does scGPT work with?
- It is written for Universal, as a SKILL.md file. Other agents that read the same format can often use it too.
- Is scGPT safe to use?
- It is Apache-2.0-licensed and scores 100/100 on trust signals. Skills are instructions an agent will follow, so read the file before installing it and do not approve commands you do not understand.
- Is scGPT still maintained?
- The repository was last updated 2 days ago, so scGPT is actively maintained.
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Languages
Trust signals
From repository metadata: license, adoption, age and documentation. Not a code audit — see the Safety scan above for what the skill file itself contains.