fair-esm2 SKILL.md skillA
fair-esm2 from aipoch/open-science is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add aipoch/open-science/fair-esm2@git:20260915.c156910Pins git:20260915.c156910 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- aipoch/open-science
- Path
resources/skills/fair-esm2/SKILL.md- Versions recorded
- 4
- Latest version
- git:20260915.c156910, committed Sep 15, 2026
- First version recorded
- Jul 14, 2026
- Size
- 5,997 bytes
- Repository stars
- 5,279
- License
- Apache-2.0
Embed proteins with Meta AI's ESM-2 (`fair-esm` package). Use this skill when: (1) Extracting per-residue or per-sequence embeddings for downstream ML, (2) Masked-LM likelihood / mutation effect scoring, (3) Contact prediction from a sequence.
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
# fair-esm2 — ESM-2 (Meta AI)
ESM-2 code and weights are MIT (Meta AI, github.com/facebookresearch/esm).
> **Package disambiguation.** `pip install fair-esm` gives you `import esm`
> with `esm.pretrained.*` (ESM-1/2). Biohub's github.com/Biohub/esm fork
> (MIT) gives you `from esm.models.esmfold2 import ESMFold2InputBuilder` —
> see the **`esmfold2`** skill. Both share the `esm` namespace but are
> different libraries. This skill covers **fair-esm** (the Meta package).
## Prerequisites
| Requirement | Minimum | Recommended |
| ----------- | ----------------------- | ------------------ |
| Python | 3.8+ | 3.11 |
| CUDA | 11.7+ | 12.x |
| GPU VRAM | 8 GB (8M), 16 GB (650M) | 24 GB+ (650M / 3B) |
## How to run
### Embeddings
```python
import torch, esm
model, alphabet = esm.pretrained.esm2_t33_650M_UR50D()
model = model.eval().cuda()
bc = alphabet.get_batch_converter()
_, _, toks = bc([("ubq", "MQIFVKTLTGKTITLEVEPSDTIENVK")])
with torch.no_grad():
out = model(toks.cuda(), repr_layers=[33])
emb = out["representations"][33] # (1, L+2, 1280) — includes BOS/EOS
…Read the whole file at its exact version.
How to install
mdr add aipoch/open-science/fair-esm2@sha256:b1cc3fb1a02f13ecThe line at the top of this page pins the label git:20260915.c156910, 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_nbnwycn4phc6zul7)
5 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 4 versions of this file, between Jul 14, 2026 and Sep 15, 2026, about one every 21 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260915.c156910 latest | 2026-09-15 | c156910 | 5,997 B | A | view · diff |
| git:20260907.1f786cf | 2026-09-07 | 1f786cf | 5,073 B | A | view · diff |
| git:20260811.e7618cb | 2026-08-11 | e7618cb | 5,087 B | A | view · diff |
| git:20260714.a2a3282 | 2026-07-14 | a2a3282 | 4,914 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 (5997 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 · 5,279 stars · license Apache-2.0 · pushed 2026-10-19 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_nbnwycn4phc6zul7 GET https://markdownregistry.com/api/v1/resolve?ref=aipoch/open-science/fair-esm2 GET https://markdownregistry.com/api/v1/blob/b1cc3fb1a02f13ec983cca14772f2d8ab0746be39d3d94ea0c68eef73db0443a
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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