paper-writer

Brainstorm a paper from the current repo — dispatch writing-brainstormer in an isolated subagent.

Build a paper outline from findings — dispatch outline-architect in an isolated subagent.

Orchestrator for the full paper-writing pipeline. Detects current stage from papers/<slug>/working/ and dispatches the right agent. Pauses at each checkpoint for user decisions.

Line-level polish of a draft — dispatch prose-polisher in an isolated subagent.

Hostile peer review of a complete draft — dispatch peer-reviewer in an isolated subagent.

Use after outline-architect has produced a section outline. Writes LaTeX prose for ONE section at a time, following the claim-evidence chain exactly. Does NOT change the outline structure.

Use after writing-brainstormer has produced a findings inventory and the user has chosen a thesis. Designs paper structure with section-level claim-evidence chains and word allocation. Does NOT write prose.

Use after a complete draft is assembled. Simulates a critical peer reviewer for ML / computational biology venues. Produces a 0-100 scored review with hostile devil's-advocate paragraph. READ-ONLY — never modifies any file.

Use after a draft is content-complete. Performs LINE-LEVEL edits only — typos, grammar, forbidden-pattern replacement, sentence tightening. Does NOT rewrite arguments, reorganize, or change emphasis.

Use when the user has a repo of experimental results and needs help deciding what to write. Scans the repo, inventories findings, proposes table/figure designs, surfaces narrative hooks. Read-mostly; writes only to papers/<slug>/working/. Does NOT write paper prose.

Style rules for academic prose in ML / computational biology venues. Loaded by draft-writer and prose-polisher to ensure consistent voice and avoid LLM-typical patterns.

Argumentation template for constructing paper sections. Each claim must be paired with explicit evidence and an explicit narrative function. Loaded by outline-architect and draft-writer.

Established figure and table patterns for ML / computational biology papers. Loaded by writing-brainstormer to ground figure suggestions in conventional patterns rather than improvising. Includes references to type-specific guides.

You are writing or editing LaTeX paper sources. This skill governs the **mechanics** of citations, references, equations, figures, and the `[CITE: ...]` / `[CLAIM-NEEDS-EVIDENCE]` / `[NEEDS-AUTHOR-DECISION]` markers. It does not govern voice, argument structure, or claim verification — those are owned by other skills (see §1 Scope).

Use when designing a paper's argumentative skeleton from a findings inventory and a chosen thesis, before any prose is written. Covers skeleton selection (IMRaD/benchmark/position/bio-applied), section-level claim-evidence chain construction, load-bearing claim identification, word-budget allocation, and conclusion-no-new-claims sanity checks.