esmfold2 SKILL.md skillA
esmfold2 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/esmfold2@git:20260814.c9a70d8Pins git:20260814.c9a70d8 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/esmfold2/SKILL.md- Versions recorded
- 2
- Latest version
- git:20260814.c9a70d8, committed Aug 14, 2026
- First version recorded
- Jul 14, 2026
- Size
- 10,951 bytes
- Repository stars
- 5,279
- License
- Apache-2.0
Biohub ESMFold2 / ESMFold2-Fast all-atom co-folding (Candido et al. 2026, github.com/Biohub/esm). Single-sequence and MSA modes; protein, DNA, RNA, ligand (CCD/SMILES), modified residues. FoldBench Ab-Ag 50-55%, PPI 70-77% DockQ-pass. Also covers the ESMC-{300M,600M,6B} protein language models from the same release: masked-LM logits, hidden states, mutation scoring, contact prediction, and the SAE interpretability head. MIT-licensed weights on HuggingFace org `biohub`. Use this skill when: (1)…
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
# ESMFold2 (Biohub)
All-atom diffusion co-folding from the Biohub ESM release (2026). ESMFold2 =
48 pair layers with MSA support; ESMFold2-Fast = 24 layers, single-sequence
only, ~1.7x faster.
**License:** MIT (code github.com/Biohub/esm + weights HF `biohub/*`).
**Paper:** "Language Modeling Materializes a World Model of Protein Biology" (2026).
## Install
CUDA 12.x GPU (H100/A100-class); Python **3.12 only**. Fresh venv; needs
egress to HF Hub, GitHub, PyPI:
```bash
pip install --no-cache-dir uv
uv venv --python 3.12 /work/venv && source /work/venv/bin/activate
uv pip install \
"torch>=2.5,<2.8" einops "biotite>=1.0" rdkit msgpack-numpy biopython \
scikit-learn brotli attrs pandas cloudpathlib httpx tenacity zstd pydssp \
pygtrie accelerate huggingface_hub safetensors "numpy<3" networkx \
sentencepiece tokenizers regex packaging filelock pyyaml typing_extensions \
"transformers @ git+https://github.com/Biohub/transformers.git@3a8956fb4d4ea16b0ec8e71deef2c2909b6a5cbf"
uv pip install --no-deps "esm @ git+https://github.com/Biohub/esm.git@f652b471"
# OPTIONAL — only affects ESMC attention; trunk speedup comes from set_kernel_backend("fused")
…Read the whole file at its exact version.
How to install
mdr add aipoch/open-science/esmfold2@sha256:f5bdaff9ffdc2c0aThe line at the top of this page pins the label git:20260814.c9a70d8, 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_rjec42pnq2avzqtj)
5 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 2 versions of this file, between Jul 14, 2026 and Aug 14, 2026, about one every 31 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260814.c9a70d8 latest | 2026-08-14 | c9a70d8 | 10,951 B | A | view · diff |
| git:20260714.a2a3282 | 2026-07-14 | a2a3282 | 10,208 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 (10951 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_rjec42pnq2avzqtj GET https://markdownregistry.com/api/v1/resolve?ref=aipoch/open-science/esmfold2 GET https://markdownregistry.com/api/v1/blob/f5bdaff9ffdc2c0a4a66c1f4d7613f919ffeafa0da84e0a5ba9adb40d1191307
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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