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Opentrons protocol agent

Skill BioTender-max/awesome-bio-agent-skills/skills/openclaw/opentrons-protocol-agent

A curated collection of AI agent skills for biomedical research, covering genomics, proteomics, single-cell analysis, clinical AI, and protein design.From the repository description

Install
npx -y skills add BioTender-max/awesome-bio-agent-skills --skill opentrons-protocol-agent

Assembled from the repository path, not quoted from the project. Check it against their README if it does not work.

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  • no licenseNo license file was found in the repository. Code published without one is not open source by default, so using it at work is a question for whoever answers licensing questions where you are.

SKILL.md

1.9 KB, 486 tokens by cl100k_base, as published. Nobody here has run it

<!-- # COPYRIGHT NOTICE # This file is part of the "Universal Biomedical Skills" project. # Copyright (c) 2026 MD BABU MIA, PhD <[email protected]> # All Rights Reserved. # # This code is proprietary and confidential. # Unauthorized copying of this file, via any medium is strictly prohibited. # # Provenance: Authenticated by MD BABU MIA -->

name: 'opentrons-protocol-agent' description: 'Generates executable Python protocols for Opentrons OT-2 and Flex robots from natural language descriptions.' measurable_outcome: Execute skill workflow successfully with valid output within 15 minutes. allowed-tools:

  • read_file
  • run_shell_command

Opentrons Protocol Agent

The Opentrons Protocol Agent bridges the gap between experimental design and physical execution by translating instructions into Opentrons Python API scripts.

When to Use This Skill

  • When you need to automate a liquid handling task (PCR prep, ELISA, serial dilution).
  • When you have a text description of a lab protocol and need code for the robot.
  • To validate if a requested protocol is feasible with available labware.

Core Capabilities

  1. Protocol Generation: Creates valid .py files for OT-2/Flex.
  2. Labware Validation: Checks compatibility of plates and tipracks.
  3. Volume Calculation: Automates liquid transfer math (e.g., dilution factors).

Workflow

  1. Describe: Provide the experiment details (source, destination, volumes).
  2. Generate: The agent uses the opentrons_protocol_template.py or internal logic to draft the script.
  3. Review: The user (or a simulator agent) reviews the code for safety.

Example Usage

User: "Create a protocol for 1:2 serial dilution in a 96-well plate."

Agent Action: (Uses an LLM to fill in the template or generate code)

# Agent writes the file to disk
python3 -m opentrons.simulate generated_protocol.py
<!-- AUTHOR_SIGNATURE: 9a7f3c2e-MD-BABU-MIA-2026-MSSM-SECURE -->

What ships with it: 3 files

9.3 KB alongside SKILL.md, 2 of them executable

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