Generate a co-author / collaborator handoff brief for a multi-author, multi-machine project — summarizing what changed since the last brief (git delta), the current state of each artifact (manuscript, analysis, slides), open questions, how to reproduce…
End-to-end R data analysis pipeline — exploration → cleaning → regression → publication-ready tables and figures. Use when user says "analyze this dataset", "run a regression on X", "explore this CSV", "full analysis workflow", "get me summary stats and a…
Close out a working session. Writes a session log and brings TASKS.md, MEMORY.md, CHANGELOG.md and README.md up to date. Use whenever the user says they are stopping, wrapping up, done for the day, or asks to close the session.
Grill the user relentlessly about a plan, decision, or idea. Use when the user wants to stress-test their thinking, or uses any 'grill' trigger phrases.
Read-only audit of `.tex`, `.qmd`, or `.md` text for AI-voice tells — boilerplate transitions ("Moreover", "Furthermore", "It is important to note that"), AI-cliché lexicon ("delve", "navigate the complexities", "tapestry", "robust framework"), em-dash…
Comprehensive manuscript review with three modes: single-pass (default), --adversarial critic-fixer loop, and --peer [journal] simulated peer-review pipeline (editor + 2 dispositioned referees + editorial decision, calibrated to a target journal). R&R…
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…
Review academic prose for clarity, argument structure, and consistency of voice. Comments only, no rewriting. Use when a draft section reads badly, before sending anything to a co-author, or when the user asks for feedback on writing rather than a rewrite.