Opentrons Agent

---name: opentrons-protocol-agent description: Generates executable Python protocols for Opentrons OT-2 and Flex robots from natural language descriptions. license: MIT metadata: author: MD BABU MIA version: "1.0.0" compatibility:

• system: Python 3.10+ allowed-tools:
• run_shell_command
• read_file

keywords:

• opentrons-agent
• automation
• biomedical measurable_outcome: execute task with >95% success rate. ---"

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