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Tamarind Bio Cloud Molecular Design API

Run open-source structural biology and molecular design tools (AlphaFold, Boltz, RFdiffusion, DiffDock…) on Tamarind Bio's managed GPUs via its REST API or MCP server.

Web & APIAdvanced★ 33,030⑂ 3,248AI score 8/10Last updated: Aug 9, 2026

What it does

Teaches Claude to drive the Tamarind Bio platform end to end so computational biology jobs run on managed cloud GPUs instead of local hardware.

  • Enforces the canonical loop: discover tools → fetch schema → validate → submit → poll → retrieve results.
  • Covers structure prediction (AlphaFold, Boltz-2, Chai-1, ESMFold2), protein/binder/de novo design (RFdiffusion, ProteinMPNN, LigandMPNN, BoltzGen, BindCraft), antibody & nanobody design and developability, docking (DiffDock, Autodock Vina), binding-affinity prediction, MSA generation, and molecular dynamics.
  • Supports both REST (x-api-key header) and the hosted MCP server (mcp.tamarind.bio/mcp), with validateJob dry-runs before submission.
  • Documents the non-obvious behaviors: GET /jobs?jobName= returns a bare row, /result is a two-step presigned download, batch parents poll on batchStatus (not subjob status), uploaded files are referenced by bare filename, and file-typed params treat plain strings as inline content.

Who it's for

  • Researchers and biotech engineers without local GPU capacity
  • Teams batch-screening dozens to hundreds of sequences through one tool
  • Anyone chaining design → fold → score into pipelines
  • (Prerequisites) A Tamarind Bio account and API key, Python 3.10+, network access. Only 10 free jobs; beyond that a paid subscription is required.

Examples

  1. "Fold this sequence with AlphaFold" → pull the tool schema, submit the job, poll every 30s, download the results zip.
  2. "Verify every sequence my ProteinMPNN run designed" → MCP submitBatch(fromJob="my-proteinmpnn-job", type="alphafold"), then wait for the parent's batchStatus to hit Complete.
  3. "Dock this ligand set into my target PDB pocket" → upload the receptor, reference it by bare filename, compare autodock-vina vs. boltz co-folding, then submit as a batch.

· · · Install guide · · ·

Try it now, no install

Paste this into Claude to use the skill without installing anything.

Read the instructions in this file and follow them to help me:
https://raw.githubusercontent.com/K-Dense-AI/scientific-agent-skills/HEAD/skills/tamarind/SKILL.md

What I want: (describe your task here)

If Claude can't open the link, open it yourself and paste the contents instead.

↓ If it works for you, download the ZIP below and install it. Then it runs on its own — no pasting each time.

Install in the Claude app (no terminal)
  1. Download the ZIP with the button below.
  2. In Claude, open Settings → Capabilities and turn on 'Code execution and file creation'. (one time)
  3. Go to Customize → Skills → + → 'Upload a skill' and upload the ZIP.
↓ Download ZIP
Install in Claude Code

Let Claude do it — paste this into Claude Code

Install the skill I found on AI Skill Mart.
Copy the skills/tamarind folder from the GitHub repo K-Dense-AI/scientific-agent-skills into my ~/.claude/skills/tamarind/.
When it's done, tell me in one line what this skill can do.

Install with a command instead

git clone https://github.com/K-Dense-AI/scientific-agent-skills.git && mkdir -p ~/.claude/skills && cp -r scientific-agent-skills/skills/tamarind ~/.claude/skills/

⚠ This is a third-party skill. Check the source repository before installing.

  1. Open a terminal.
  2. Clone the repository: git clone https://github.com/K-Dense-AI/scientific-agent-skills.git
  3. Create the skills directory: mkdir -p ~/.claude/skills
  4. Copy the skill in: cp -r scientific-agent-skills/skills/tamarind ~/.claude/skills/
  5. Sign in at app.tamarind.bio and create an API key in your account/API settings.
  6. Export the key: export TAMARIND_API_KEY="your_api_key" (add it to ~/.zshrc or ~/.bashrc to persist).
  7. Verify access: curl https://app.tamarind.bio/api/tools -H "x-api-key: $TAMARIND_API_KEY"
  8. Restart Claude Code, then ask something like "use Tamarind to fold this sequence" to trigger the skill.
View source on GitHub ↗License: MIT