By 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
- Protocol Generation: Creates valid
.pyfiles for OT-2/Flex. - Labware Validation: Checks compatibility of plates and tipracks.
- Volume Calculation: Automates liquid transfer math (e.g., dilution factors).
Workflow
- Describe: Provide the experiment details (source, destination, volumes).
- Generate: The agent uses the
opentrons_protocol_template.pyor internal logic to draft the script. - 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