AGENTS.md (Mini)

Personal documentation site for Brian Yandell (byandell): byandell.github.io/Documentation (GitHub).

Structure

• R/, python/, github/, envsys/, AI/, prompts/, quarto/, datasci/, images/
• README.md (Main site index; sync with _quarto.yml)
• AI_prompts.md (AI prompts index; update when adding new ones)
• prompts/ (Saved prompts, e.g., file_versions.md)

Key Rules

• No Overwriting Versioned Files: Follow multi-version commit workflow in prompts/file_versions.md (e.g., do not overwrite *_v1.R).
• Prose: Markdown (.md) or Quarto (.qmd). Quarto slides render to HTML in quarto/.
• Sub-folder READMEs: Concise, high-level summaries with file links.

Code Preferences

• R: tidyverse, standard roxygen2 docs, build packages with devtools.
• Python: pandas, scikit-learn, docstrings, type hints.
• Reports/Slides: Quarto (.qmd) over R Markdown (.Rmd).
• Shiny: bslib for UI/theming.