Research

Journal recommendation engine for medical manuscripts. 2-pass matching against a curated public profile library plus any user-local private profiles, enriched with detailed write-paper profiles for top-5 output. Returns ranked recommendations with scope fit rationale, AI disclosure policy, and homepage links. No cached IF/APC data — users verify current metrics at journal sites.

Research gap finder for longitudinal cohort databases. Profiles cohort strengths, matches PI expertise, scans literature saturation, and outputs ranked topic proposals with gap evidence. Works with any cohort: NHIS, UK Biobank, institutional EMR, health checkup registries, or disease-specific registries.

Study design and validity review for radiology and medical AI research. Identifies analysis unit, cohort logic, leakage risks, comparator design, validation strategy, and reporting guideline fit before drafting or submission.

End-to-end cross-national comparison study using KNHANES + NHANES + CHNS (or other parallel surveys). Variable harmonization, parallel weighted analysis, and comparison tables. Supports 2-country (KR+US) and 3-country (KR+US+CN) designs.

Check manuscript compliance with medical research reporting guidelines. Supports 33 guidelines including STROBE, CONSORT, STARD, STARD-AI, TRIPOD, TRIPOD+AI, ARRIVE, PRISMA, PRISMA-DTA, PRISMA-P, CARE, SPIRIT, CLAIM, MI-CLEAR-LLM, SQUIRE 2.0, CLEAR, MOOSE, GRRAS, SWiM, AMSTAR 2, and risk of bias tools (QUADAS-2, QUADAS-C, RoB 2, ROBINS-I, ROBINS-E, ROBIS, ROB-ME, PROBAST, PROBAST+AI, NOS, COSMIN, RoB NMA). Generates item-by-item assessment with PRESENT/MISSING/PARTIAL status.

Interactive sample size calculator for medical research. Decision-tree guided test selection, reproducible R/Python code, effect size interpretation, and IRB-ready justification text. Supports diagnostic accuracy, agreement, proportions, continuous outcomes, survival, ANOVA, logistic regression, and non-inferiority/equivalence designs.

Generate N analysis scripts from a single methodology template × multiple exposure/outcome combinations. The "80-person team" pattern — same validated method, swap variables only. Produces batch R/Python code + summary matrix.

Add a new journal to the MedSci Skills profile database. Extracts metadata from author guidelines, generates write-paper (detailed) and find-journal (compact) profiles in canonical format with quality gates.

Use when a reader-facing deliverable exists and needs a deterministic PASS/FAIL quality gate. **Trigger**: self loop, self-loop, polish deliverable, quality gate, fix-on-fail, 收敛, 自循环, 质量门. **Use when**: A pipeline has produced a reader-facing deliverable (`output/*.md`) and you want deterministic convergence to PASS. **Skip if**: You are still pre-approval for prose or the upstream evidence/structure artifacts are missing. **Network**: none. **Guardrail**: Do not invent papers/citations/resu...

对中文毕业论文进行编译、warning 分级、模板模式检查、数据与引用复查，并把问题回写成可继续迭代的 review checklist。 **Trigger**: 毕业论文编译检查, thesis compile review, warning 分级, 终稿复查, main.pdf 检查. **Use when**: 论文已经回写到 TeX 交付层，需要确认是否真正达到“可提交”的质量，而不是只做到能编译。 **Skip if**: 还处于中间层重构阶段，`chapters/*.tex` 尚未形成稳定交付稿。 **Network**: none. **Guardrail**: 不在这里重构章节主线；如果发现结构问题，明确回退到上游修复。

为中文毕业论文补强并核验引用：找出必须有引文支撑的句子，扩展候选文献，检查引用与论断是否匹配，并回写参考文献与正文引用。 **Trigger**: 引用补强, citation enhance, 文献补充, 引用核验, 毕业论文参考文献检查. **Use when**: 正文已有一定稳定度，需要系统补足背景、定义、对照工作和关键结论的引用支撑，并检查是否存在误引或漏引。 **Skip if**: 还没有稳定正文，或当前仅在做早期结构重构。 **Network**: optional. **Guardrail**: 不为了堆引用而堆引用；引用必须与论断匹配；先补对，再补多。

Bind papers to chapter-level sections first, writing `outline/section_bindings.jsonl` and `outline/section_binding_report.md`. **Trigger**: section bindings, chapter bindings, section-first binding, 章节绑定, 章级绑定. **Use when**: survey structure should measure chapter saturation before stable H3 decomposition. **Skip if**: chapter skeleton is missing or the bindings are already refined. **Network**: none. **Guardrail**: NO PROSE; do not invent papers; produce auditable PASS/BLOCKED/REROUTE signals.

Structured paragraph curation for C5: **select -> evaluate -> subset -> fuse**, so drafts converge instead of only expanding. **Trigger**: paragraph curator, curation, select evaluate fuse, paragraph selection, 选段, 评价, 融合, 收敛, 去冗余. **Use when**: you are in C5, `sections/*.md` exist, and the writing loop drifts toward 'longer by accumulation' (repetition, redundant paragraphs, weak synthesis). **Skip if**: evidence packs are thin / `evidence-selfloop` is BLOCKED; or you are pre-C2 (NO PROSE). ...

Systematic debugging: 4-phase process with 3-strike architectural review

Manages a Zotero academic reference library through both the local API (localhost:23119, read-only) and the Web API (api.zotero.org, read-write), using a structured collection hierarchy (Inbox / Active Projects / Background / Reading Queue / Archive / Meta) plus project, status, priority, and type tags. Handles adding papers with full metadata, deduplication, attaching provenance notes, moving items between collections, updating tags after reading, listing the prioritized reading queue, and s...

Extracts paper recommendations from social-media posts and online articles (小红书 / Xiaohongshu / RedNote, 微信公众号 / WeChat Official Accounts, Twitter / X threads, Reddit posts, Bilibili videos, blog posts, newsletters, Jina Reader URLs), identifies the underlying academic papers, locates the authoritative original sources (arXiv, conference proceedings, DOI), and triages relevance to the user's research before any library action. Use when the user forwards a social-media link, screenshot, or art...

Conducts a systematic related-work / literature-survey / state-of-the-art review for a research question by defining survey dimensions, searching each axis, building a taxonomy of prior work, identifying the gap, and producing a positioning narrative for a paper's Related Work section. Goes beyond a flat paper list to deliver structured analysis. Use when the user is starting a new research project and needs to map the landscape, asks "what's been done on X?" or "how does my idea compare to e...

Reads and analyzes academic papers (arXiv preprints, conference / journal PDFs, Zotero items) at three configurable depths: quick skim (2 min), standard read (10 min), or deep analysis (30 min). Produces structured digests covering problem, method, key innovation, results, limitations, reproducibility, hidden assumptions, and connections to the user's other work. Use when the user shares an arXiv link, PDF, or paper title and asks to read / summarize / digest / TL;DR / analyze / review / crit...

Batch download academic paper full-text (PDF/XML) from a list of DOIs. Handles 25 DOI prefixes across 19 publisher families via three layered routes: (1) publisher TDM APIs requiring institutional subscription (Elsevier ScienceDirect, Wiley Online, Springer Nature), (2) Open Access sources (Crossref, Unpaywall, OpenAlex), and (3) a browser-based fallback for paywalled publishers without TDM access (ACS, RSC, IEEE, AIP, IOP, APS, Annual Reviews, T&F, Chinese journals). Browser fallback offers ...

Searches and discovers academic papers across multiple sources (Semantic Scholar, arXiv, Tavily, Exa, Gemini deep research, AMiner, Google Scholar) with adaptive engine selection based on query type. Returns ranked, deduplicated results with metadata (authors, venue, year, citations, abstract, PDF link). Use when the user asks to find papers / literature / publications / preprints / references on a topic, search for related work, look up a specific paper by title or DOI or arXiv ID, find pape...

Use when encountering any bug, test failure, or unexpected behavior, before proposing fixes

Legal methods for accessing paywalled and geo-blocked content. Use when researching behind paywalls, accessing academic papers, bypassing geographic restrictions, or finding open access alternatives. Covers Unpaywall, library databases, VPNs, and ethical access strategies for journalists and researchers.

Academic writing, research methodology, and scholarly communication workflows. Use when writing papers, literature reviews, grant proposals, conducting research, managing citations, preparing for peer review, choosing OA routes under Plan S / 2026 OSTP Nelson Memo, posting preprints, working with persistent identifiers (ORCID, DOI, ROR), assigning CRediT contributor roles, preregistering analyses on OSF / AsPredicted, or disclosing LLM use to journals and funders. Essential for researchers, g...

Choose the correct CLAUDE.md or LESSONS.md template for journalism projects. Use when starting a new project, setting up documentation, or unsure which template category fits best. Provides decision trees and selection guidance for 6 journalism-focused template types.