Data & ReproBioinformatics & GenomicsFreedomIntelligence/OpenClaw-Medical-SkillsData & Reproduction

biomcp-server

Maintainer FreedomIntelligence · Last updated April 1, 2026

BioMCP: Model Context Protocol server for bioinformatics tool access.

OpenClawNanoClawAnalysisReproductionbiomcp-server🧠 bioos extended suiteresearch infrastructure & agentsbiomcp

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

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

Skill Snapshot

2 min

Deploy and operate the BioMCP server so MCP-compatible clients (Claude Desktop, LobeChat, etc.) can query biomedical databases via a single standardized interface.
Unified literature search (PubMed/PMC) inside MCP clients.
Entity normalization via PubTator3 or genomic variant lookups.
ClinicalTrials.gov queries without bespoke API wrappers.
Unified literature search (PubMed/PMC) inside MCP clients. Entity normalization via PubTator3 or genomic variant lookups. ClinicalTrials.gov queries without bespoke API wrappers.

Source Doc

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

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

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.