opentrons-integration

Automate Python-based liquid handling protocols for Opentrons OT-2 and Flex robots.

2|Updated Jun 4, 2026
One-click install
npx skills add https://github.com/Lord1Egypt/scientific-agent-toolkit --skill opentrons-integration-lord1egypt
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: opentrons-integration
Source: https://github.com/Lord1Egypt/scientific-agent-toolkit/tree/main/scientific-skills/opentrons-integration
Command: npx skills add https://github.com/Lord1Egypt/scientific-agent-toolkit --skill opentrons-integration-lord1egypt

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires opentrons, and includes scripts (resource) and references (resource) components.

What problem does it solve?

This skill removes the complexity of manual pipetting and hardware configuration by providing a standardized interface for writing and executing automated liquid handling protocols on Opentrons robotic platforms.

Core Features & Use Cases

  • Protocol Automation: Write Python-based Protocol API v2 scripts for liquid handling, including serial dilutions, plate replication, and PCR setup.
  • Hardware Control: Manage complex lab equipment such as thermocyclers, heater-shakers, magnetic modules, and temperature modules.
  • Use Case: A researcher can use this skill to automate the preparation of 96-well plates for PCR, ensuring precise volume distribution and temperature cycling without manual intervention.

Quick Start

Use the opentrons-integration skill to generate a serial dilution protocol for a 96-well plate using the Flex robot configuration.

Frequently Asked Questions about opentrons-integration

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I automate liquid handling protocols for Opentrons OT-2 and Flex robots?

To automate liquid handling, you write Python-based Protocol API v2 scripts that define volume distribution, deck management, and module orchestration for Opentrons OT-2 and Flex robots. This skill generates and executes those protocols to handle tasks like serial dilutions and PCR setup without manual pipetting.

Can I control thermocyclers and heater-shakers using Python protocol automation?

Yes, Python protocol automation can control thermocyclers, heater-shakers, magnetic modules, and temperature modules. You orchestrate this complex lab equipment hardware by defining the operational sequence and parameters within your Protocol API v2 scripts.

How do I write a serial dilution protocol for a 96-well plate using the Opentrons Flex?

You write a serial dilution protocol by creating a Python script using Protocol API v2 that specifies the 96-well plate labware, pipette, and transfer volumes for the Flex robot. The skill automates this protocol generation to ensure precise volume distribution across the wells.

Does Opentrons protocol automation support PCR setup for 96-well plates?

Yes, Opentrons protocol automation supports PCR setup for 96-well plates. You use Python scripts to automate precise volume distribution and temperature cycling, preparing the plates without manual intervention by orchestrating pipettes and thermocycler modules.

Do I need to know Python and the Opentrons Protocol API v2 to automate lab workflows?

Yes, you need Python knowledge and must adhere to the Opentrons Protocol API v2 standard. All liquid handling, deck management, and hardware control operations require Python-based scripts to define the automated experimental workflows.

What are the limitations of Opentrons liquid handling automation for complex experimental workflows?

Opentrons liquid handling automation is limited by its strict adherence to the Protocol API v2 standard and physical hardware constraints. All complex experimental workflows, including hardware orchestration and deck management, must be explicitly defined within the Python protocol scripts.