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biomcp-server

维护者 FreedomIntelligence · 最近更新 2026年4月1日

BioMCP: Model Context Protocol server for bioinformatics tool access.

OpenClawNanoClaw分析处理复现实验biomcp-server🧠 bioos extended suiteresearch infrastructure & agentsbiomcp

原始来源

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/biomcp-server

维护者
FreedomIntelligence
许可
MIT
最近更新
2026年4月1日

技能摘要

来自 SKILL.md 的关键信息

2 min

核心说明

  • 部署 、 operate BioMCP server so MCP-compatible clients (Claude Desktop，LobeChat，etc.) can query biomedical databases ，通过 single standardized interface。
  • Unified literature search (PubMed/PMC) inside MCP clients。
  • Entity normalization ，通过 PubTator3 或 genomic variant lookups。
  • ClinicalTrials.gov queries without bespoke API wrappers。
  • Unified literature search (PubMed/PMC) inside MCP clients. Entity normalization ，通过 PubTator3 或 genomic variant lookups. ClinicalTrials.gov queries without bespoke API wrappers。

原始文档

SKILL.md 摘录

Core Capabilities

  1. PubMed/PMC search: Execute complex literature queries.
  2. PubTator3 annotations: Map text to genes, diseases, chemicals, species.
  3. ClinicalTrials.gov: Retrieve trial metadata/protocols.
  4. Genomic variant lookups: Fetch variant/gene summaries from connected sources.

Deployment Workflow

  1. Install deps: cd repo && uv sync (preferred) or pip install ..
  2. Run server: python -m biomcp.server or make run; Docker Compose provided.
  3. Configure client: Add command/args snippet from README.md into MCP client config (Claude Desktop, BioKernel, etc.).
  4. Test tools: Invoke PubMed + ClinicalTrials + variant endpoints to ensure connectivity.
  5. Monitor: Capture logs, rate-limit statuses, and data-source versions for audit.

Guardrails

  • Keep API keys/env secrets outside the repo.
  • Respect upstream rate limits to avoid throttling or bans.
  • Document which data sources are enabled per deployment and update when they change.

适用场景

  • Use biomcp-server ，用于 genomics 、 bioinformatics workflows。
  • Apply biomcp-server to sequencing，variant，或 omics analysis tasks。

不适用场景

  • Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。

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