esm

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Comprehensive toolkit for protein language models including ESM3 (generative multimodal protein design across sequence, structure, and function) and ESM C (efficient protein embeddings and representations). Use this skill when working with protein sequences, structures, or function prediction; designing novel proteins; generating protein embeddings; performing inverse folding; or conducting protein engineering tasks. Supports both local model usage and cloud-based Forge API for scalable inference.

AI & Automation 27,984 stars 2901 forks Updated today MIT

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Skill Content

# ESM: Evolutionary Scale Modeling ## Overview ESM provides state-of-the-art protein language models for understanding, generating, and designing proteins. This skill enables working with two model families: ESM3 for generative protein design across sequence, structure, and function, and ESM C for efficient protein representation learning and embeddings. ## Core Capabilities ### 1. Protein Sequence Generation with ESM3 Generate novel protein sequences with desired properties using multimodal generative modeling. **When to use:** - Designing proteins with specific functional properties - Completing partial protein sequences - Generating variants of existing proteins - Creating proteins with desired structural characteristics **Basic usage:** ```python from esm.models.esm3 import ESM3 from esm.sdk.api import ESM3InferenceClient, ESMProtein, GenerationConfig # Load model locally model: ESM3InferenceClient = ESM3.from_pretrained("esm3-sm-open-v1").to("cuda") # Create protein prompt protein = ESMProtein(sequence="MPRT___KEND") # '_' represents masked positions # Generate completion protein = model.generate(protein, GenerationConfig(track="sequence", num_steps=8)) print(protein.sequence) ``` **For remote/cloud usage via Forge API:** ```python from esm.sdk.forge import ESM3ForgeInferenceClient from esm.sdk.api import ESMProtein, GenerationConfig # Connect to Forge model = ESM3ForgeInferenceClient(model="esm3-medium-2024-08", url="https://forge.evolutionaryscale.ai", t...

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Author
davila7
Repository
davila7/claude-code-templates
Created
11 months ago
Last Updated
today
Language
Python
License
MIT

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Comprehensive toolkit for protein language models including ESM3 (generative multimodal protein design across sequence, structure, and function) and ESM C (efficient protein embeddings and representations). Use this skill when working with protein sequences, structures, or function prediction; designing novel proteins; generating protein embeddings; performing inverse folding; or conducting protein engineering tasks. Supports both local model usage and cloud-based Forge API for scalable inference.

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Run ESM protein language models — ESM3 for generative multimodal protein design across sequence, structure, and function, and ESM C for efficient embeddings and representations — locally or via the cloud Forge API. Use when working with protein sequences, structures, or function prediction, designing novel proteins, generating protein embeddings, performing inverse folding, or doing protein-engineering tasks. Part of the AlterLab Academic Skills suite.

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