robot_protocol_step_generator
Converts natural language or PDF protocol text into executable step sequences for Opentrons or PyLabRobot. Parses protocol descriptions to extract pipette volumes, well positions, temperatures, incubation times, and transfer patterns; outputs Python code snippets or JSON instruction lists ready for robot execution or simulation.
npx skills add BioTender-max/awesome-bio-agent-skills --skill robot_protocol_step_generator --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# Robot Protocol Step Generator ## Overview `robot_protocol_step_generator` bridges human-written protocol documentation and robot-executable code. It ingests natural language descriptions ("Add 50 µL of primer to each well in column A") or PDF/Markdown protocol text, parses them with LLM or rule-based extraction to identify liquid handling parameters (volume, source, destination, well layout), temperature settings, incubation durations, and transfer patterns, and emits either Python code for Opentrons Protocol API or PyLabRobot, or a structured JSON instruction list that can be executed by a generic robot controller. The skill enables rapid protocol translation from SOPs, protocols.io entries, or manuscript Methods sections into runnable automation — reducing the gap between written procedures and automated execution in the LabOS anywhere-lab vision. ## When to Use This Skill Use this skill when any of the following conditions are present: - **Protocol-to-robot translation**: A researcher has a written protocol (PDF, Word, Markdown, protocols.io) and wants to run it on an Opentrons OT-2/Flex or PyLabRobot-compatible robot without manually writing Python. - **Natural language proto
- Overview
- When to Use This Skill
- Core Capabilities
- 1. Protocol Text Ingestion & Parsing
- 2. Instruction Schema & Step Representation
- 3. Opentrons Python Code Generation
- 4. PyLabRobot Code Generation
- 5. Deck Layout Inference
- 6. Serial Dilution & Pattern Expansion
- Usage Examples
- Example 1 — Natural Language to Opentrons Python
- Example 2 — PDF Protocol to JSON Instruction List
- Example 3 — Serial Dilution Pattern
- Integration Notes
What does the robot_protocol_step_generator skill do?
Converts natural language or PDF protocol text into executable step sequences for Opentrons or PyLabRobot. Parses protocol descriptions to extract pipette volumes, well positions, temperatures, incubation times, and transfer patterns; outputs Python code snippets or JSON instruction lists ready for robot execution or simulation.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill robot_protocol_step_generator --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 144 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.