brycewang-stanford/review-r
skills/28-maxwell2732-paper-replicate-agent-demo/dot-claude/skills/review-r/SKILL.md
Run the R code review protocol on R scripts. Checks code quality, reproducibility, domain correctness, and professional standards. Produces a report without editing files.
$ install --global
skillsauthnpx skillsauth add brycewang-stanford/Awesome-Agent-Skills-for-Empirical-Research review-rInstall this skill globally with one command. Works with Claude Code, Cursor, and Windsurf.
Security Scan Results
3 of 9 scanners reported clean
Some scanners were skipped, did not run, or reported a non-clean status. Review each row below.
3
Scanners Passed
9
Scanners in report
Clean
TrivyContainer and dependency vulnerability scanner
95%
Clean
SemgrepStatic code analysis for vulnerabilities
95%
Clean
mcp-scan (Snyk)Model Context Protocol security validation
95%
Skipped
Snyk (dep)Open source security scanning
50%
Skipped
Socket.devSupply chain security analysis
50%
Skipped
VirusTotalMulti-engine malware detection
50%
Skipped
CrowdStrikeAdvanced threat intelligence
50%
Skipped
OSV-ScannerOpen Source Vulnerability database check
50%
Skipped
OWASP Dep-Check
50%
Last scanned: Apr 30, 2026, 5:08 AM16.1s1 file scanned
SKILL.md
- name:
- review-r
- description:
- Run the R code review protocol on R scripts. Checks code quality, reproducibility, domain correctness, and professional standards. Produces a report without editing files.
- disable-model-invocation:
- true
- argument-hint:
- [filename or 'all' or 'LectureN']
- allowed-tools:
- ["Read", "Grep", "Glob", "Write", "Task"]
Review R Scripts
Run the comprehensive R code review protocol.
Steps
-
Identify scripts to review:
- If
$ARGUMENTSis a specific.Rfilename: review that file only - If
$ARGUMENTSisLectureN: review all R scripts matching that lecture - If
$ARGUMENTSisall: review all R scripts inscripts/R/andFigures/*/
- If
-
For each script, launch the
r-revieweragent with instructions to:- Follow the full protocol in the agent instructions
- Read
.claude/rules/r-code-conventions.mdfor current standards - Save report to
quality_reports/[script_name]_r_review.md
-
After all reviews complete, present a summary:
- Total issues found per script
- Breakdown by severity (Critical / High / Medium / Low)
- Top 3 most critical issues
-
IMPORTANT: Do NOT edit any R source files. Only produce reports. Fixes are applied after user review.
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