alterlab-esm

# ESM: Evolutionary Scale Modeling ## Overview ESM provides state-of-the-art protein language models for understanding, generating, and designing proteins. Three families ship in the same `esm` package: - **ESMC** — the current representation model (300M / 600M open weights, 6B via the hosted platform), used for embeddings, logits, and downstream ML features. - **ESMFold2** — structure prediction built on ESMC-6B, hosted via `esmfold2_client`. - **ESM3** — the generative multimodal model over sequence / structure / function tracks. ### Naming and hosting changed — read this before copying old code EvolutionaryScale now operates as **Biohub**. The practical consequences: - The hosted API moved from `forge.evolutionaryscale.ai` to **`https://biohub.ai`**; every client in `esm.sdk` defaults to that URL and reads the token from `ESM_API_KEY`. The classes are still named `*ForgeInferenceClient` for backwards compatibility. - Model weights live under the **`biohub`** Hugging Face organisation (`biohub/ESMC-6B`, `biohub/esm3-sm-open-v1`, `biohub/ESMFold2`). - ESMC and ESMFold2 are also available through Hugging Face Transformers v5.16+, which is a different dependency stack from the `esm` package's optimized inference path. ## When to Use This Skill Use this skill when the user wants protein embeddings or logits, a protein structure from an ESM model, inverse folding, or generative sequence design. ### Does NOT Trigger | Scenario | Use Instead | |----------|-----...