scgpt skillA
scgpt is agent-read markdown (skill) from aipoch/open-science: 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..
Indexed from public GitHub and served as immutable, content-addressed versions. Install it pinned to an exact SHA-256 with the mdr CLI, and every file is verified against the hash recorded here before it reaches your agent. The deterministic audit below grades the latest version, and the same file always earns the same grade.
How to install
mdr add aipoch/open-science/scgpt@git:20260811.e7618cbmdr add aipoch/open-science/scgpt@sha256:c28cd78216ecd6dcPin to a label to follow the author's releases, or to a sha256 to freeze the exact bytes forever. Either way the resolved hash is written to mdr.lock, and mdr install reproduces it on any machine.
[](https://markdownregistry.com/a/art_my2oniu4345glzo7)
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Versions
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260811.e7618cb latest | 2026-08-11 | e7618cb | 5,980 B | A | view · diff |
| git:20260714.a2a3282 | 2026-07-14 | a2a3282 | 5,347 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (5980 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
aipoch/open-science · 3,699 stars · license Apache-2.0 · pushed 2026-09-06 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_my2oniu4345glzo7 GET https://markdownregistry.com/api/v1/resolve?ref=aipoch/open-science/scgpt GET https://markdownregistry.com/api/v1/blob/c28cd78216ecd6dcbae4d5a025b2a419908c4aaaba615ea812f0286b89b77b95