Med-Peds ID Fellow Doing EHR Informatics Research | Driven by data, music, bicycle | Thoughts & typo-planting skill my own
Bennett Waxse
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I wrote up my approach in a blog post: bennettwaxse.com/blog/bioinfo...
If you're a researcher curious about Claude Code, here's where I start.
If you have a different workflow, I'd love to hear about it.
Why bother? Because LLM context windows are big enough to hold an entire project—so use them. Don't hide how you derived a cohort when that derivation can inform what you're asking the model to do next.
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- #CLAUDE.md files that orient Claude to your project's structure, conventions, and domain quirks
- Reference materials (data dictionaries, trusted queries), so the model knows what's actually in your tables
- .claudeignore to prevent reading secrets, redundant files, or data you shouldn't share
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I've been using #ClaudeCode for #research #informatics—cohort building, debugging pipelines, genomics in #AllofUs. Before any of that was useful, I had to set things up right.
The setup isn't complicated, but it matters. Here's how I do it:
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