Dunn Lab Code

Welcome! This manual documents coding practices in the Dunn Lab. It is packaged as a Claude Code plugin — a collection of skills, hooks, and slash commands that standardize how we use AI-assisted coding across the lab.

The plugin, with manual source documents, is available at https://github.com/caseywdunn/dunnlab_code.

Table of Contents

• Getting Started — An introduction to the computational stack we use in the lab.
• Lab Practices — Conventions for AI-assisted work and contributing
• Claude Code Concepts — How Claude Code works: interfaces, working directory, and extensibility
• Managing Security — Configuring permissions with settings.json
• Managing Context — Providing Claude Code with the right context
• Example Workflows — Step-by-step walkthroughs for common tasks

For new lab members

If you’re just getting started, head to the Getting Started guide.

For contributors

Want to add a new skill, update a command, or improve these docs? Here’s the short version:

1. Clone the repo and create a branch
2. Add or edit files in the appropriate directory (skills/, commands/, hooks/, or docs/)
3. Open a pull request for review

See Lab Practices for our conventions on AI-assisted work and contributing back to this repo.