review-r

name

review-r

description

Read-only R code review protocol for `.R` scripts. Checks code quality, reproducibility, domain correctness, tidyverse idioms, and professional standards; produces a report without editing. Use when user says "review this R script", "check the R code", "audit the analysis code", "code review on the R", or when an R file is touched as part of a paper submission. NOT for running the code — pair with `$audit-reproducibility` for numeric verification.

Review R Scripts

Run the comprehensive R code review protocol.

Steps

1. Identify scripts to review:

   • If <input> is a specific .R filename: review that file only
   • If <input> is LectureN: review all R scripts matching that lecture
   • If <input> is all: review all R scripts in scripts/R/ and Figures/*/

2. For each script, launch the r-reviewer agent with instructions to:

   • Follow the full protocol in the agent instructions
   • Read .codex/rules/r-code-conventions.md for current standards
   • Save report to quality_reports/[script_name]_r_review.md

3. After all reviews complete, present a summary:

   • Total issues found per script
   • Breakdown by severity (Critical / High / Medium / Low)
   • Top 3 most critical issues

4. IMPORTANT: Do NOT edit any R source files. Only produce reports. Fixes are applied after user review.