esm

Generate, embed, and analyze proteins with multimodal language models.

Updated Aug 27, 2026
One-click install
npx skills add https://github.com/must1f/Dissertaion-Project --skill esm-must1f
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: esm
Source: https://github.com/must1f/Dissertaion-Project/tree/main/.agents/skills/esm
Command: npx skills add https://github.com/must1f/Dissertaion-Project --skill esm-must1f

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes references (resource) components.

What problem does it solve?

Protein scientists need scalable tools to design, analyze, and optimize proteins using state-of-the-art language models that integrate sequence, structure, and function information.

Core Features & Use Cases

  • Multimodal protein design across sequence, structure, and function with ESM3.
  • Efficient embeddings and representations with ESM C models.
  • Flexible deployment via local inference or Forge API for scalable inference.
  • End-to-end pipelines for design, screening, and validation, including variant generation and clustering.

Quick Start

Install the esm package, load a pretrained model, and run a simple design task using a functional annotation.

Frequently Asked Questions about esm

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I generate protein sequences and structures using language models?

You can use ESM to design multimodal proteins by configuring ESMProtein and GenerationConfig, enabling sequence design, structure prediction, and function conditioning across local GPUs or the Forge API.

How do I compute protein embeddings for downstream analysis tasks?

You can compute efficient protein embeddings and representations using ESM C models, which support embedding-based tasks like sequence clustering and variant generation for screening and validation pipelines.

Can I run structure prediction locally, or do I need an external API?

You can run protein structure prediction and sequence design locally on your GPUs or use the Forge API for scalable inference, providing flexible deployment options depending on your hardware.

What is the best way to design proteins conditioned on specific functional annotations?

ESM3 enables multimodal protein design by conditioning sequence and structure generation on specific functional annotations, allowing you to tailor outputs to desired biological functions.

How do I build an end-to-end pipeline for protein design and screening?

ESM provides a unified API and references for building end-to-end pipelines that handle protein design, screening, and validation, including variant generation and clustering.

Does ESM support integrating sequence, structure, and function information simultaneously?

ESM supports multimodal protein language models that integrate sequence, structure, and function information, allowing researchers to analyze and optimize proteins using comprehensive data.