scgpt

xuzhougeng/wisp-science

SkillLoads cleanly

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…

Scores
out of 100 · grade B+

2026-08-13

Works

40% of the score

90/100

References 1 file that is not in the repo: scgpt_embed.py.

Maintained

25% of the score

100/100

no commits in the last 12 weeks

Adopted

20% of the score

42/100

1,154 stars on the source repo.

Documented

15% of the score

74/100

500 words with worked examples.

Loads cleanly. Every structural check Claude Code needs to register this passed. Last commit today.

Install

npx skills add xuzhougeng/wisp-science/scgpt

What the check found

Every finding on this listing, and what each one means for whether it loads.
Finding	What it means
Missing files	It points at files that are not in the repository, so those steps will fail.

Files it references that are not in the repository

scgpt_embed.py

What it says it does

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 tasks. For probabilistic single-cell models (scVI etc.), use the scvi-tools library.

Every number above came out of reading the file and its repository. Nothing is a judgement call, nothing is a model’s opinion, and nothing can be paid for. The full method is published. Source last committed 2026-08-13.

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