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manage-refs

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Use when references must be written, rendered or converted. Checks [@key] citation keys, renders the reference list with a journal CSL via pandoc, converts [N] markers, injects Zotero Word field codes and runs manuscript-DOCX cross-reference QC. Read-only auditing is /verify-refs.

skills/manage-refs/SKILL.md

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# Manage-Refs Skill

Pick the tool from the Decision Tree; do not invent a parallel pipeline. References are never
hand-typed: the list is always rendered by pandoc citeproc + journal CSL or by the Zotero Word
plugin (CWYW). This skill writes (renders, injects, converts); bibliographic correctness against
PubMed/CrossRef stays in `/verify-refs` — one read-only audit, one writer.

## Decision Tree

| Situation | Tool | Why |
|---|---|---|
| Validate `[@bibkey]` ↔ `refs.bib` (UNDEFINED / UNUSED keys) | `scripts/check_citation_keys.py` | Hard build gate, runs in seconds |
| Single-author submission lockdown, frozen output | `scripts/render_pandoc.sh -j <journal>` | Reproducible, CI-friendly |
| Cascade rejection (e.g., ER → JVIR → CVIR) | `render_pandoc.sh` with new `-j` | CSL swap reformats references in seconds |
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