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Run multiple complementary literature searches and merge results for broad coverage. Triggers include parallel search, 並行搜尋, 廣泛搜尋.

Cross-agent workflow for evidence-grounded manuscripts, proposals, reports, student papers, and preprints with auditable gates.

Cross-agent workflow for evidence-grounded manuscripts, proposals, reports, student papers, and preprints with auditable gates.

MCP tools for PDF ingestion → extract figures, tables, sections → build knowledge graph. Transforms PDF into queryable assets (images, tables, text) with cross-document RAG. Triggers: PDF, ingest, extract, 圖片, 表格, figure, table, manifest, knowledge graph,…

Pipeline persistence — save, load, and reuse structured search plans. Triggers: pipeline, 管道, search plan, 搜尋計畫, 重複搜尋, saved search, 排程, schedule, workflow, DAG

Export citations with prepare_export. Triggers: 匯出, export, RIS, BibTeX, EndNote, Zotero, Mendeley, 引用格式, reference manager

Full text access using get_fulltext, figure extraction, and institutional link tools. Triggers: 全文, fulltext, PDF, open access, 免費下載, PMC, 開放取用

Gene, compound, and variant research using search_gene, search_compound, and search_clinvar. Triggers: 基因, gene, 藥物, drug, compound, PubChem, ClinVar, 變異, variant, 臨床意義

Orchestrate pre-commit workflow including Memory Bank sync, README/CHANGELOG/ROADMAP updates, and MCP tool count sync. Triggers: GIT, gc, push, commit, 提交, 準備 commit, 要提交了, git commit, pre-commit, 推送.

Complete reference for all 45 PubMed Search MCP tools. Triggers: 工具列表, all tools, 完整功能, tool reference, 有哪些工具

Deep exploration from a key paper using related, citing, reference, and citation tree tools. Triggers: 這篇論文的相關研究, 誰引用這篇, 類似文章, related articles, citation tree, paper exploration

Persistent, versioned research evolution with build_research_chronicle. Triggers: 研究脈絡, 研究演變, 研究編年史, research chronicle, 領域怎麼演進, 上次之後有什麼新的, 追蹤主題, 里程碑, milestone, timeline, 主題比較

Auto-sync MCP tool documentation when tools are added, removed, or renamed. Triggers: TS, tool-sync, 工具同步, 同步工具, sync tools, new tool, 新增工具, 工具變更, update tools.

Codex drawing harness integration. Triggers: 繪圖, draw, figure, chart, plot, mermaid, SVG, Gemini, graph, 生成圖表.

Codex harness for PubMed Search MCP. Triggers: pubmed search, literature search, unified_search, pipeline, fulltext, release checklist, Codex.

Pipeline persistence — save, load, and reuse structured search plans. Triggers: pipeline, 管道, search plan, 搜尋計畫, 重複搜尋, saved search, 排程, schedule, workflow, DAG

Validate that written content accurately reflects source materials. LOAD THIS SKILL WHEN: User says "驗證", "validate", "檢查準確性", "核對" | after writing notes/reports | ensuring content accuracy. CAPABILITIES: Source-target comparison, citation verification, fact…

Filter, validate and organize literature search results. LOAD THIS SKILL WHEN: User has search results and needs to "過濾", "篩選", "filter", "選擇文獻" | reviewing search results | narrowing down papers. CAPABILITIES: Relevance filtering, duplicate detection,…

Complete literature retrieval capability combining search and filter skills. LOAD THIS SKILL WHEN: User needs "文獻檢索", "找文獻", "retrieve literature", "系統性搜尋" | starting systematic review | comprehensive literature search. CAPABILITIES: Multi-database search,…

Search and retrieve academic literature from multiple databases. LOAD THIS SKILL WHEN: User says "搜尋文獻", "search literature", "find papers", "PubMed", "學術搜尋" | needs to find research articles | starting literature review. CAPABILITIES: PubMed search, MeSH…

Write structured notes from source materials following academic standards. LOAD THIS SKILL WHEN: User says "寫筆記", "write notes", "摘要", "summarize", "整理重點" | has source content to summarize | creating reading notes. CAPABILITIES: Structured summaries, key…

Read and extract content from PDF files using multiple methods. LOAD THIS SKILL WHEN: User says "讀取 PDF", "read PDF", "打開論文", "看這篇" | has PDF file path | needs to extract text from PDF. CAPABILITIES: PDF to markdown conversion, text extraction, figure…

Complete report writing capability combining reading, note-taking, validation, and formatting. LOAD THIS SKILL WHEN: User needs "寫報告", "write report", "整理成報告", "產出文件" | has source materials to summarize | creating academic document. CAPABILITIES: PDF reading,…

Auto-update CHANGELOG.md following Keep a Changelog format. LOAD THIS SKILL WHEN: User mentions "changelog", "version", "release notes" | says "更新日誌", "版本", "變更記錄" | before releases | after completing features or fixes. CAPABILITIES: Categorize changes…

Proactively detect and execute code refactoring to maintain DDD architecture and code quality. Use when code is too complex, violates DRY principle, or needs restructuring. Triggers: RF, refactor, 重構, 拆分, split, 模組化, modularize, 太長, cleanup, 簡化, simplify,…

Systematic debugging workflow using hypothesis-test-verify cycle to find and fix issues efficiently. Use when encountering errors, bugs, unexpected behavior, or test failures. Triggers: DEBUG, 除錯, bug, 找問題, 為什麼不work, 出錯了, error, fix bug, 壞了, broken, 不動, 故障,…

Pre-commit orchestration workflow ensuring Memory Bank sync, README/CHANGELOG/ROADMAP updates before git commit. Use when preparing to commit code changes or push to repository. Triggers: GIT, gc, push, commit, 提交, 準備 commit, 要提交了, git commit, pre-commit, 推送,…

Complete data analysis workflow including EDA, Table One, descriptive statistics, and correlation analysis using MCP AutoML tools. Use when analyzing CSV data, exploring datasets, generating summary statistics, or creating publication-ready Table One reports.…

Data cleaning and preprocessing workflow including handling missing values, encoding categorical variables, filtering rows, removing columns, and checking multicollinearity (VIF). Use when preparing data for analysis, cleaning messy datasets, or transforming…

Machine learning model training workflow using AutoML including data upload, model training, evaluation, and prediction. Use when training classification or regression models, comparing algorithms, or making predictions on new data. Triggers: 訓練模型, train…

Generate comprehensive test suites including unit tests, integration tests, E2E tests, and coverage reports. Use when writing tests, improving coverage, or validating functionality. Triggers: TG, test, 測試, 寫測試, coverage, 覆蓋率, pytest, unittest, 驗證, 測試案例, test…

Intelligently update README.md to reflect code changes, new features, and API updates. Use when adding new features, changing APIs, or syncing documentation with code. Triggers: readme, 說明, 更新說明, update readme, 文檔同步, 更新文檔, documentation, docs.

Deep comprehensive code audit across quality, security, architecture compliance, test coverage, and documentation sync. Triggers: AUDIT, 審計, audit, 全面審查, deep review, 深度審查, 健檢, health check, 程式碼審計, codebase audit, 完整檢查, full check.

Check health, freshness, and consistency of all Skills, copilot-instructions.md, chatmodes, and bylaws. Triggers: SHC, health, 健康檢查, skill check, freshness, 翻新, 過期, stale, 檢查 skill, instruction check, audit skills, 技能檢查.

Structured bug fixing workflow with root cause analysis and regression prevention. Triggers: BF, 修 bug, fix bug, debug, 除錯, 錯誤, error, 問題, issue, 修復, fix, 故障, fault, 異常, exception, 失敗, failure, 不能用, broken, 壞掉.

Auto-update CHANGELOG.md following Keep a Changelog format. Triggers: CL, changelog, 變更, 版本, version, 更新日誌, whatsnew, release notes, 發布說明, 變更紀錄, history, 歷史, 更新紀錄, 新功能, new features, breaking changes.

Proactively detect and execute code refactoring to maintain DDD architecture and code quality. Triggers: RF, refactor, 重構, 拆分, split, 模組化, modularize, 太長, cleanup, 整理, clean, 優化, optimize, extract, 提取, simplify, 簡化, 複雜度, complexity, 重組, reorganize, 改善,…

Complete code review workflow for PR/MR with multiple reviewers and automated checks. Triggers: PRW, 審查流程, review workflow, PR review, MR review, pull request, merge request, 程式碼審查流程, full review, 完整審查.

Comprehensive code review checking quality, security, and best practices. Triggers: CR, review, 審查, 檢查, check, 看一下, PR, code review, 品質, inspect, 檢視, 看看, 幫看, lint, quality check, 品質檢查, pull request, merge request, MR, diff, 程式碼審查.

Ensure code follows DDD architecture and DAL separation for both frontend and backend. Triggers: DDD, arch, 架構, 新功能, 新模組, new feature, scaffold, 骨架, domain, layer, 分層, structure, 結構, backend, frontend, React, Vue, Python, TypeScript, 前端, 後端, component, 元件.

程式碼/報告生成。觸發詞：生成程式碼, Python 函數, LaTeX, 報告, export。

步進式推導工作流。觸發詞：推導, derive, 組合公式, 建立模型。

公式庫管理。觸發詞：找公式, 列出, 更新公式, 刪除公式, 公式庫。

外部公式搜尋。觸發詞：搜尋公式, Wikidata, BioModels, 物理常數, PK模型, 反應動力學。

快速計算（無需會話）。觸發詞：計算, 簡化, 求解, 微分, 積分, 極限, 級數, 不等式, 機率。

驗證工具組合。觸發詞：驗證, verify, check, 維度, dimension。

Auto-update CHANGELOG.md following Keep a Changelog format. Triggers: CL, changelog, 變更, 版本, version, 更新日誌, whatsnew.

Proactively detect and execute code refactoring to maintain DDD architecture and code quality. Triggers: RF, refactor, 重構, 拆分, split, 模組化, modularize, 太長, cleanup.

MCP tools for PDF ingestion → extract figures, tables, sections → build knowledge graph. Transforms PDF into queryable assets (images, tables, text) with cross-document RAG. Triggers: PDF, ingest, extract, 圖片, 表格, figure, table, manifest, knowledge graph,…

難度分類器，基於 Ragas 標準評估題目難度。Triggers: 難度分類, 難度評估, difficulty, 評估難度, 調整難度.

重複題目檢查器，檢測語意重複和過度相似的題目。Triggers: 查重, 重複檢查, duplicate, 相似題, 題目查重, 檢查重複.

問答題/申論題生成器，支援簡答、解釋、比較、分析等題型。Triggers: 問答題, 申論題, 簡答題, essay, short answer, 解釋題, 比較題, 分析題.

試卷組裝器，將題目組合成完整試卷。Triggers: 組卷, 組裝試卷, assemble, 建立試卷, 試卷組合, 產生試卷.

考卷生成主編排器，解析考試配置並調度所有子 Skills 完成完整出題流程。Triggers: 生成考卷, 出考題, 模擬考, 產生試題, generate exam, create test, 出題, 考試, 測驗, quiz, exam, 製作考卷.

詳解生成器，為題目生成詳細解答說明。Triggers: 詳解, 解答, explanation, 生成解答, 解析, 答案說明, 為什麼.

匯出格式器，將試卷匯出為多種格式。Triggers: 匯出, export, 下載, PDF, Word, 列印, 輸出格式.

Generate comprehensive test suites including static analysis, unit tests, integration tests, E2E tests, and coverage reports. Triggers: TG, test, 測試, 寫測試, coverage, 覆蓋率, pytest, unittest, 驗證.

13-Phase Auditable EDA Pipeline orchestration. Use when user wants to explore data, run analysis, or asks about the pipeline. Triggers: EDA, 資料探索, 分析資料, pipeline, 13-phase, analyze, 探索.

Phase 10 report assembly and export workflow. Use when user wants to generate, review, or export the EDA report. Triggers: 報告, report, assemble, export, 產出報告, 匯出.

Auto-update CHANGELOG.md following Keep a Changelog format. Triggers: CL, changelog, 變更, 版本, version, 更新日誌, whatsnew.

Pipeline persistence — save, load, and reuse structured search plans. Triggers: pipeline, 管道, search plan, 搜尋計畫, 重複搜尋, saved search, 排程, schedule, workflow, DAG

Complete reference for all 44 PubMed Search MCP tools. Triggers: 工具列表, all tools, 完整功能, tool reference, 有哪些工具

PICO-based clinical question search using parse_pico and unified_search. Triggers: PICO, 臨床問題, A比B好嗎, treatment comparison, clinical question, 療效比較

13-Phase Auditable EDA Pipeline orchestration. Use when user wants to explore data, run analysis, or asks about the pipeline. Triggers: EDA, 資料探索, 分析資料, pipeline, 13-phase, analyze, 探索.

Audit and auto-update skills, hooks, instructions, and bylaws to stay in sync with codebase changes. Triggers: self-update, 自主更新, audit skills, 審計技能, update instructions, 更新指令, sync hooks, 同步 hooks.

Assist with Frontend DDD architecture design, component organization, and testing. Triggers: frontend, 前端, react, component, 元件, vitest.

Generate test files for new code including unit, integration, and e2e tests. Triggers: test, 產生測試, generate test, 測試, 寫測試.

Automatically update CHANGELOG.md based on code changes following Keep a Changelog format. Triggers: changelog, 更新 changelog, update changelog, 變更紀錄.

Proactively suggest and execute code refactoring to maintain clean architecture. Triggers: refactor, 重構, 優化程式碼, clean up, 整理程式碼.

Perform code review with DDD architecture compliance check. Triggers: review, 程式碼審查, code review, 審查, CR.

Assist with DDD architecture design and compliance checking. Triggers: DDD, 架構, architecture, 領域設計, domain design.

Orchestrate pre-commit workflow including Memory Bank sync, README/CHANGELOG/ROADMAP updates. Triggers: GIT, gc, push, commit, 提交, 準備 commit, 要提交了, git commit, pre-commit, 推送.

Complete reference for all 46 PubMed Search MCP tools. Triggers: 工具列表, all tools, 完整功能, tool reference, 有哪些工具

Deep exploration from a key paper using related, citing, reference, and citation tree tools. Triggers: 這篇論文的相關研究, 誰引用這篇, 類似文章, related articles, citation tree, paper exploration

Codex harness for PubMed Search MCP. Triggers: pubmed search, literature search, unified_search, pipeline, fulltext, release checklist, Codex.

Auto-check and update key documentation before Git commits to keep docs in sync with code. Triggers: docs, 文檔, 更新文檔, sync docs, release, 發布.

Orchestrate pre-commit workflow including Memory Bank sync, README/CHANGELOG/ROADMAP updates. Triggers: GIT, gc, push, commit, 提交, 準備 commit, 要提交了, git commit, pre-commit, 推送.

Maintain multilingual README versions (English primary, Chinese translation). Triggers: i18n, 翻譯, translate, 多語言, sync readme, 中英文, bilingual.

Intelligently update README.md to sync with code changes. Triggers: readme, 說明, 更新說明, update readme, 文檔同步.

Generate comprehensive test suites including static analysis, unit tests, integration tests, E2E tests, and coverage reports. Triggers: TG, test, 測試, 寫測試, coverage, 覆蓋率, pytest, unittest, 驗證.

Cline harness for this repo (rules + workflows + checks). Triggers: cline harness, full check, release checklist, workflow, 文檔工作流, DFM, citation-ready.

Cline harness for Zotero/PubMed assistant workflows bundled with Pharmacy MCP. Triggers: zotero keeper, zotero mcp, full check, release checklist, workflow, Cline.

Codex harness for Asset-Aware MCP references bundled with Pharmacy MCP. Triggers: asset-aware, MCP, PDF, DOCX, DFM, citation-ready, CRAAP, release checklist.

Codex harness for Zotero/PubMed assistant workflows bundled with Pharmacy MCP. Triggers: zotero keeper, zotero mcp, full check, release checklist, workflow, Codex.

Auto-update CHANGELOG.md following Keep a Changelog format. Triggers: CL, changelog, 變更, 版本, version, 更新日誌, whatsnew.

Proactively detect and execute code refactoring to maintain DDD architecture and code quality. Triggers: RF, refactor, 重構, 拆分, split, 模組化, modularize, 太長, cleanup.

Generate comprehensive test suites including static analysis, unit tests, integration tests, E2E tests, and coverage reports. Triggers: TG, test, 測試, 寫測試, coverage, 覆蓋率, pytest, unittest, 驗證.