Gdc Mcp

io.github.mrfentmen由 GitHub 账号 mrfentmen 发布v1.0.1更新于 Nov 3, 2026

NCI Genomic Data Commons: TCGA and other cancer projects, with full project detail

已验证STDIO仅桌面知识与记忆数据与分析

概览

AI 生成的概览

只读的 MCP 服务器,让助手浏览 NCI 基因组数据共享库(GDC)的癌症项目,并在 GDC 基因索引中查询基因。

可以做什么
  • 列出 GDC 癌症项目(如 TCGA、TARGET、CPTAC),可按关键词筛选
  • 查看单个项目的完整详情:名称、疾病类型、原发部位、项目计划与摘要
  • 按基因符号在 GDC 基因索引中查询,返回 id、biotype、cytoband 与规范转录本长度
适用场景
当需要助手回答关于公开癌症基因组学元数据的问题时使用,例如有哪些 GDC 项目、某项目涵盖什么、或某个基因的基本信息,无需离开对话。
运行要求
以本地 stdio 进程运行,从 npm 包 @mrfentmen/gdc-mcp 安装;需要 Node.js 以及访问 GDC 数据的网络连接。未声明任何 API 密钥、环境变量或请求头。
安装前请注意
README 称该仓库多数服务器读取公开数据、无需自带密钥,但也说明许多已发布包中的工具仍只返回“Not yet implemented”,因此使用前应先确认这三个工具确实可用。仅提供只读查询,未描述任何写入操作。

安装

在 SourceWeft 中

  1. 打开 控制台中的 Gdc Mcp,将其添加到工作区。
  2. 为需要使用其工具的对话启用该服务。

Desktop only,通过 STDIO。 STDIO 服务会启动本地进程,因此需要 SourceWeft 桌面宿主。

其他 MCP 客户端

参照 仓库 中的启动说明。

README

awesome-servers

One repo for three families of servers, each subtree keeping its own layout and tooling so it can still be built, run and published on its own.

SubtreeWhat it holdsRun one
mcp/338 TypeScript MCP servers, plus 1107 published packages in published/cd mcp/servers/<slug> && npm install && npm run build
acp/79 Python ACP agentspython3 acp/agents/<name>/agent.py
a2a/37 Python A2A servers plus the shared a2a_kitpython3 a2a/servers/<name>/server.py
watchd/a threshold watcher that runs the feeds between editor sessionspython3 watchd/watchd.py --config conditions.json --loop
site/the published site: registry with search, the public-feed atlas, watchd planshttps://mrfentmen.github.io/awesome-servers/

Most servers read public data with no key of their own; the ones wrapping a vendor API take that vendor's key. Nothing in this repo asks a caller to pay. On 2026-10-17 the licence machinery was removed for good: the per-tool src/license.ts gates are gone from the MCP servers, and the A2A and ACP trees no longer carry the hosted licence-gateway half — the skills that used it now answer with an explicit not-implemented stub. Nothing here asks a caller to pay, and nothing they run is refused with a buy link.

Nothing here is generated: each subtree's README says what its servers read, and every server has its own unit tests (mcp/servers/<slug>/tests, acp/agents/<name>/tests, a2a/servers/<name>/tests) plus a live smoke check (tools/smoke*.py, a2a/tools/smoke_all.py).

Novel and original

Nearly all of this is first-of-its-kind work, not a port of an existing catalogue. Before each server or agent was built, it was checked against the official tool lists (the MCP registries, agentclientprotocol.com's agent list and registry) and a live GitHub search for the same domain, and the research logs record what was found and why it still counted as missing — see mcp/MISSING.md, acp/MISSING.md and a2a/docs/. Highlights:

  • The MCP side holds TypeScript servers, one npm package each, and 1039 published packages under published/; mcp/MISSING.md documents the check that preceded every build: what was searched, what was skipped and why the domain still counted as uncovered.
  • On the ACP side there were zero domain agents before this repo — every agent on the official list was a coding agent. These 79 Python agents are the first non-coding ACP agents, and several use protocol surfaces no other agent uses in production (session/request_permission for dataset reads, fs/write_text_file for a briefing file, session/cancel for a conditional watch, image content blocks, a live SSE push feed), each proved-unused in the wild by search at build time. Two more firsts carry their own proof: the orchestrator is an agent whose feeds are agents — it spawns sibling repo agents as real ACP child processes and merges their answers — and the nyc pack is the first multi-agency city surface.
  • acp/MISSING.md doubles as the public-feed atlas: every keyless feed probed live, with its date, what it answered and whether it still works. The published site renders that table at https://mrfentmen.github.io/awesome-servers/atlas.html.
  • The pattern across all three subtrees is the same thesis: wrap one real, keyless public dataset, answer honestly about what the feed did and did not say, and keep the whole thing small, tested and self-contained.

Publishing

  • MCP servers publish from mcp/servers/<slug> (its own package.json, version and README).
  • ACP and A2A servers are repo-run today (Python, no packaging step).

Built on top of it

Creatures that use this corpus as their world live in the sibling repo mrfentmen/superagents (public, with its own claim-check in MISSING.md):

  • polymath — routes your question to the most fitting agents of this repo, spawns each as a real ACP child process, and merges the answers into one brief with per-row citations; a sibling that fails appears as a named row, never silence. Its registry is a data file and its ranking is deterministic word-scoring, not a model opinion.
  • sentry — one plain sentence ("watch air quality in Denver over 150") becomes a tracked watch: a permission-asked protocol write produces the conditions file this repo's watchd/ obeys unchanged, plus the activation lines. Checks it can author today: air thresholds, quake magnitudes within a radius, river gauges at flood stage.
  • fedora hat guy — the persona agent in his own repo mrfentmen/fedora-hat: says "never miss" and means it — one sentence installs the full crown of watches (air + quakes, gauge-named flood) in one permissioned write, and your other questions are forwarded to the siblings above with every row cited.
  • instink — the instinct agent in his own repo mrfentmen/instink: compiles a skill into a reflex — a matcher plus the answer it fires, with hit/miss counters and honest promotion/demotion. The skill doc stays one step away, never deleted.
  • contextink — the context agent in his own repo mrfentmen/contextink: you say "do this" and it acquires the context from the repo, git, and recent files so you don't have to explain it; asks only the minimal high-information-gain questions when acquisition fails.
  • rewind — the replay agent in his own repo mrfentmen/rewind: replays agent runs and mutates one variable to see what would have happened. Replay + mutate + diff for agent traces.
  • scopink — the scope agent in his own repo mrfentmen/scopink: checks if an action is within the scope of what was asked. Detects scope creep in agent plans.
  • curious — the curiosity agent in his own repo mrfentmen/curious: proactively seeks information it doesn't have. Scans for knowledge gaps, seeks answers, learns facts.
  • bored — the idle agent in his own repo mrfentmen/bored: uses idle time productively. Consolidates memories, explores areas, prepares for tasks.

Point the polymath at a checkout of this repo with AWESOME_SERVERS_HOME=$PWD/awesome-servers and it federates across the two repos live.

Published snapshot (published/)

published/ holds one directory per npm package, byte-for-byte what the registry serves: 1039 packages, every version matching npm latest.

  • published/INDEX.md is generated from the tree by python3 scripts/index-published.py.
  • scripts/sync-published-snapshot.py re-downloads every package from npm; run it only when every local fix has been published, because it overwrites dist/ from the tarballs.
  • One package carries a licence gate (MCP_LICENSE_KEY): @mrfentmen/vg-resource-mcp. Another 495 still ship tools that answer Not yet implemented; published/INDEX.md lists every one of them.
  • Every package links to this repo (mrfentmen/awesome-servers) as its source.

servers/ holds the older per-server source that predates the snapshot. Where the two disagree, published/ is what users actually install.

来源:README.md,提交 ee04f93

工具

3

list_projects

GDC cancer projects (TCGA, TARGET, CPTAC and others), optionally filtered by a keyword.

输入参数limitquery

project_detail

One GDC project in full: name, disease type, primary site, program and summary.

输入参数projectId必填

find_genes

Look genes up in the GDC gene index by symbol: id, biotype, cytoband and canonical transcript length.

输入参数symbols必填

版本历史

1
  1. v1.0.1最新Oct 29, 2026

评分

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