Borrowing it
Nothing to install: this file belongs to u9401066/rootcause-mcp. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.
curl -O https://raw.githubusercontent.com/u9401066/rootcause-mcp/master/.claude/skills/pubmed-mcp-tools-reference/SKILL.mdgit clone --depth 1 https://github.com/u9401066/rootcause-mcpWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/u9401066/rootcause-mcp/pubmed-mcp-tools-reference)<a href="https://agentmods.dev/skills/u9401066/rootcause-mcp/pubmed-mcp-tools-reference"><img src="https://agentmods.dev/badge/skills/u9401066/rootcause-mcp/pubmed-mcp-tools-reference/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/u9401066/rootcause-mcp/pubmed-mcp-tools-reference"><img src="https://agentmods.dev/badge/skills/u9401066/rootcause-mcp/pubmed-mcp-tools-reference.svg" alt="Reviewed on agentmods" width="80" height="20"></a>What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00039 | $0.02161 |
| Opus 5 | $0.00019 | $0.01081 |
| Sonnet 5 | $0.00008 | $0.00432 |
| Haiku 4.5 | $0.00004 | $0.00216 |
Grade A, and why
pubmed-mcp-tools-reference scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 8d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
This is a copy
88% identical to pubmed-mcp-tools-reference — 241 lines differ, which has more behind it and is treated as the original. This page carries a canonical link to it rather than competing with it.
How it starts
The opening of the file, as written. The whole thing — 227 lines — stays where its author put it; the contents beside it link to each section on GitHub.
PubMed Search MCP 工具完整參考
描述
所有 45 個 MCP 工具的完整參考，包含參數說明和使用範例。
能力導向使用請先看 docs/TOOLS_USAGE_GUIDE.zh-TW.md。
⚠️ 注意：此文件由
scripts/count_mcp_tools.py --update-docs自動生成。 手動修改會在下次執行時被覆蓋。
濃縮理解模型
目前對外是 45 個工具，但建議先用 8 個能力族來理解。
- 理論最小下限：6 個 multiplexed meta-tools
- 實務可理解下限：8 個能力族
- 建議：先學能力族，再查完整工具表
能力族如下：搜尋、查詢規劃、論文探索、全文與取得、視覺與脈絡、實體與術語、結果與記憶、自動化與保存。
工具分類總覽
| 類別 | 工具數 | 主要用途 |
|---|---|---|
| 搜尋工具 | 1 | Unified multi-source literature search gateway |
| 查詢智能 | 3 | MeSH expansion, agent-provided PICO handoff, and query analysis |
| 文章探索 | 5 | 相關文章、引用網路 |
| 全文工具 | 2 | 全文取得與文本挖掘 |
| NCBI 延伸 | 7 | Gene, PubChem, ClinVar |
| 引用網絡 | 1 | 引用樹建構與探索 |
| 匯出工具 | 2 | 引用格式匯出與本機文獻筆記保存 |
| Session 管理 | 5 | PMID 暫存與歷史 |
| 機構訂閱 | 5 | OpenURL Link Resolver |
| 視覺搜索 | 1 | 圖片分析與搜索 (實驗性) |
| ICD 轉換 | 1 | ICD-10 與 MeSH 轉換 |
| 引用驗證 | 1 | Reference list verification with PubMed evidence |
| 圖表擷取 | 1 | 文章圖表與視覺資料擷取 |
| 研究編年史 | 2 | 研究演化脈絡：持久化、可版本比對、證據支撐的時序主軸與分支投影 |
| 圖片搜尋 | 1 | 生物醫學圖片搜尋 |
| Pipeline 管理 | 7 | Pipeline 持久化、載入、排程 |
搜尋工具
Unified multi-source literature search gateway
| 工具 | 說明 |
|---|---|
unified_search |
Unified Search - Single entry point for multi-source academic search. |
查詢智能
MeSH expansion, agent-provided PICO handoff, and query analysis
| 工具 | 說明 |
|---|---|
parse_pico |
Validate agent-provided PICO elements and return a runnable search plan. |
generate_search_queries |
Gather search intelligence for a topic - returns RAW MATERIALS for Agent to decide. |
analyze_search_query |
Analyze a search query without executing the search. |
文章探索
相關文章、引用網路
| 工具 | 說明 |
|---|---|
fetch_article_details |
Fetch detailed information for one or more PubMed articles. |
find_related_articles |
Find articles related to a given PubMed article. |
find_citing_articles |
Find articles that cite a given PubMed article. |
get_article_references |
Get the references (bibliography) of a PubMed article. |
get_citation_metrics |
Get citation metrics from NIH iCite for articles. |
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 8d ago First seen · 227 lines · 39 tokens per session scan A 80482d27e5d2
pubmed-mcp-tools-reference is a skill published in the GitHub repository u9401066/rootcause-mcp (0 stars, last pushed 6d ago), licensed Apache-2.0. It adds 39 tokens to every session and 2,161 once invoked, about $0.0002 per session on Opus 5. A static security scan graded it A with 0 findings. It is 88% identical to pubmed-mcp-tools-reference, differing in 241 lines, and is treated as a copy.
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