esm SKILL.md skillA
esm from k-dense-ai/scientific-agent-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add k-dense-ai/scientific-agent-skills/esm@v2.0Pins v2.0 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- k-dense-ai/scientific-agent-skills
- Path
skills/esm/SKILL.md- Versions recorded
- 6
- Latest version
- v2.0, committed Oct 1, 2026
- First version recorded
- May 27, 2026
- Size
- 10,740 bytes
- Repository stars
- 56,497
- License
- MIT
Uses the Biohub esm Python SDK for ESM3 protein generation, ESMC embeddings, and ESMFold2 all-atom folding. Applies to local model inference and Biohub hosted clients, including former Forge workflows; distinguishes the separate legacy fair-esm distribution.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# ESM: protein generation, embeddings, and folding ## When to use Use for Biohub's `esm` SDK: ESM3 masked multimodal generation, ESMC sequence representations, and ESMFold2 all-atom prediction. The former Forge platform migrated to `https://biohub.ai`, including ESM3; SDK class names still contain `Forge`. This skill targets the released **esm 3.4.1.post1**, verified against its wheel and current official documentation. `fair-esm` is Meta's separate, older ESM2/ESMFold/ESM-IF distribution. Both packages import as `esm`; install them in separate environments. The legacy `esm.pretrained.esm2_*` interface is not the Biohub ESMC interface. Hugging Face Transformers' native ESMC implementation is another API: do not interchange its version requirements or output types with this SDK. ## Setup and model choice ```bash uv venv --python 3.12 .venv-esm uv pip install --python .venv-esm/bin/python "esm==3.4.1.post1" ``` The release declares Python >=3.12, Torch >=2.11,<2.12 and Transformers >=4.57.6,<5. Python 3.12, Torch 2.11.0 and Transformers 4.57.6 were tested on CPU. Linux x86_64 installs include GPU-specific dependencies; use a supported …
Read the whole file at its exact version.
How to install
mdr add k-dense-ai/scientific-agent-skills/esm@sha256:49da3c6f5c81359dThe line at the top of this page pins the label v2.0, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_pjxlynahjjmf2kkg)
4 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 6 versions of this file, between May 27, 2026 and Oct 1, 2026, about one every 25 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| v2.0 latest | 2026-10-01 | a92663a | 10,740 B | A | view · diff |
| v1.3 | 2026-09-30 | ce9e6e9 | 13,770 B | A | view · diff |
| v1.2 | 2026-09-02 | 1e5eeff | 13,248 B | A | view · diff |
| v1.1 | 2026-07-26 | b085e11 | 12,291 B | A | view · diff |
| git:20260611.1b8fae3 | 2026-06-11 | 1b8fae3 | 12,296 B | A | view · diff |
| v1.0 | 2026-05-27 | 0936740 | 11,834 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 (10740 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
k-dense-ai/scientific-agent-skills · 56,497 stars · license MIT · pushed 2026-11-02 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_pjxlynahjjmf2kkg GET https://markdownregistry.com/api/v1/resolve?ref=k-dense-ai/scientific-agent-skills/esm GET https://markdownregistry.com/api/v1/blob/49da3c6f5c81359d48b7c0b4416a212e7106f777b4c7174b2b42ce0c02bd95f6
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.
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