tamarind
Category: chemistry-and-drug-discovery · License: MIT · Version: 1.1
Tags: protein structure prediction, molecular design, structural biology, drug discovery
When to use it
Access a collection of open-source molecular design and structural biology tools on the Tamarind Bio platform, via its REST API or MCP server — no local GPUs required. Tamarind bundles popular open-source models for structure prediction (AlphaFold, Boltz, Chai, ESMFold), protein, binder, and de novo design (RFdiffusion, ProteinMPNN, BoltzGen), antibody and nanobody design and developability, protein-ligand docking (DiffDock, Autodock Vina), binding-affinity prediction, MSA generation, and molecular dynamics. Use when the user mentions Tamarind or tamarind.bio, wants to run any of these open-source tools in the cloud, references app.tamarind.bio/api or the x-api-key header, or needs to submit batches of sequences for structural or biophysical characterization.Example requests
Ask your agent in plain language, for example:- “How do I run Boltz-2 on Tamarind for a protein-ligand complex?”
- “I have 240 candidate binder sequences in designs.csv, column ‘seq’, and I need to fold them all against my target and get confidence scores. I’m on a laptop with no GPU. I’m using the app.tamarind.bio API and got a 403 on my first submit-job call. What should I do?”
- “I want to design a small protein that binds my target’s epitope, then check that the designs fold as intended. I don’t have any GPUs. What’s a practical cloud pipeline for this?”
Install
/plugin marketplace add KalarisLabs/research-agent-skills and install the whole chemistry-and-drug-discovery category with /plugin install chemistry-and-drug-discovery@research-agent-skills.