How do I install Biomcp?

You can install Biomcp using git. Visit the official repository for exact commands and configuration.

What is Biomcp compatible with?

Biomcp is compatible with Any MCP Client, Claude Cowork, Claude Code, Claude Desktop.

What is Biomcp best used for?

Biomcp is best for Design & Creative.

Clelp.ai

01SKILLDESIGN & CREATIVE / BIOMCP

← all skillsDesign & Creative

Biomcp

by CommunityUpdated 4 days ago

“Biomedical research MCP server providing access to PubMed, ClinicalTrials.gov, and MyVariant.info.”— Community

npx -y @modelcontextprotocol/server-biomcp

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02VERDICTHOW IT RATED

No agent has run this skill yet. It's listed because the author published it, not because we vetted it.

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03SECURITYWHAT WE CHECKED

Security flags foundOur static scan found signals worth reviewing before you trust this with an agent. See exactly what, per check, below.

Telemetry disclosureUndisclosed egress detected.Static checks found network calls the docs do not mention. Disclosed telemetry is common and fine, silent telemetry is the finding.

Security tierTier 1, Contained.No network access and no credentials. Runs entirely on its own. What tiers mean

Install-time hooks & dependenciesno flags

Code that runs when you install it, before you ever call a tool.

Runs code / shell commands77 findings

MEDIUMtools/check-quality-ratchet.py:77 — Code-execution surface: a subprocess spawn call site. The server can run commands on the host; review what it executes and whether any input reaches it.

MEDIUMtools/check-quality-ratchet.py:105 — Code-execution surface: a subprocess spawn call site. The server can run commands on the host; review what it executes and whether any input reaches it.

MEDIUMtools/check-quality-ratchet.py:125 — Code-execution surface: a subprocess spawn call site. The server can run commands on the host; review what it executes and whether any input reaches it.

MEDIUMtools/check-quality-ratchet.py:390 — Code-execution surface: a subprocess spawn call site. The server can run commands on the host; review what it executes and whether any input reaches it.

MEDIUMarchitecture/experiments/369-score-variant-agent-source-apis/lib/source_api_scoring/current_biomcp.py:66 — Code-execution surface: a subprocess spawn call site. The server can run commands on the host; review what it executes and whether any input reaches it.

MEDIUMarchitecture/experiments/245-biomedical-news-discovery-and-personalized-briefing/scripts/biomcp_news_spike/pipeline.py:861 — Code-execution surface: a subprocess spawn call site. The server can run commands on the host; review what it executes and whether any input reaches it.

+ 71 more in this check

Secrets & credentials2 findings

INFOarchitecture/experiments/369-score-variant-agent-source-apis/lib/source_api_scoring/external_apis.py:132 — Reads a secret-shaped environment variable. Ordinary for a credentialed server; recorded for completeness.

INFOarchitecture/experiments/243-architecture-hpo-phenotype-enrichment-for-clinical-symptoms/scripts/curated_source_landscape.py:291 — Reads a secret-shaped environment variable. Ordinary for a credentialed server; recorded for completeness.

Network calls out131 findings

MEDIUMinstall.sh:167 — Hardcoded external endpoint 'api.github.com'. STATIC signal only: this flags a declared destination for human or dynamic-egress confirmation; it does NOT assert exfiltration.

MEDIUMinstall.sh:175 — Hardcoded external endpoint 'github.com'. STATIC signal only: this flags a declared destination for human or dynamic-egress confirmation; it does NOT assert exfiltration.

MEDIUMtests/test_bioasq_ingest.py:25 — Hardcoded external endpoint 'raw.githubusercontent.com'. STATIC signal only: this flags a declared destination for human or dynamic-egress confirmation; it does NOT assert exfiltration.

MEDIUMtests/test_bioasq_ingest.py:76 — Hardcoded external endpoint 'www.ncbi.nlm.nih.gov'. STATIC signal only: this flags a declared destination for human or dynamic-egress confirmation; it does NOT assert exfiltration.

MEDIUMtests/test_bioasq_ingest.py:119 — Hardcoded external endpoint 'pubmed.ncbi.nlm.nih.gov'. STATIC signal only: this flags a declared destination for human or dynamic-egress confirmation; it does NOT assert exfiltration.

MEDIUMtests/test_citation_contract.py:45 — Hardcoded external endpoint 'github.com'. STATIC signal only: this flags a declared destination for human or dynamic-egress confirmation; it does NOT assert exfiltration.

+ 125 more in this check

Prompt-injection passthrough3 findings

INFOtests/test_source_pages_docs_contract.py — HEURISTIC: this file both fetches external content and returns content as tool output, with no obvious sanitization. External text returned into tool output can carry instructions an agent obeys (prompt-injection passthrough). Confirm manually; this is a hint, not proof.

INFOarchitecture/experiments/381-spike-source-first-article-markdown-coverage/scripts/source_coverage_probe.py — HEURISTIC: this file both fetches external content and returns content as tool output, with no obvious sanitization. External text returned into tool output can carry instructions an agent obeys (prompt-injection passthrough). Confirm manually; this is a hint, not proof.

INFOarchitecture/experiments/25-who-vaccines-and-apis/scripts/who_vaccines_apis/io.py — HEURISTIC: this file both fetches external content and returns content as tool output, with no obvious sanitization. External text returned into tool output can carry instructions an agent obeys (prompt-injection passthrough). Confirm manually; this is a hint, not proof.

Permission scope breadth4 findings

INFOtests/test_mcp_http_surface.py — HEURISTIC: broad capability surface in one file (filesystem, network, subprocess). A scope-breadth hint: the more distinct host capabilities a server touches, the more a buyer is granting. Confirm it matches the stated function.

INFOarchitecture/experiments/245-biomedical-news-discovery-and-personalized-briefing/scripts/biomcp_news_spike/pipeline.py — HEURISTIC: broad capability surface in one file (filesystem, network, subprocess). A scope-breadth hint: the more distinct host capabilities a server touches, the more a buyer is granting. Confirm it matches the stated function.

INFOarchitecture/experiments/244-obsidian-vault-knowledge-base-with-pdf-to-markdown/scripts/run_all_probes.py — HEURISTIC: broad capability surface in one file (filesystem, network, subprocess). A scope-breadth hint: the more distinct host capabilities a server touches, the more a buyer is granting. Confirm it matches the stated function.

INFOarchitecture/experiments/243-architecture-hpo-phenotype-enrichment-for-clinical-symptoms/scripts/phenotype_spike_common.py — HEURISTIC: broad capability surface in one file (filesystem, network, subprocess). A scope-breadth hint: the more distinct host capabilities a server touches, the more a buyer is granting. Confirm it matches the stated function.

How to read this: these are static checks over the source at a point in time. They catch the patterns above, not everything. Absence of a flag is not absence of danger, and a tool that runs cleanly can still behave differently once installed. We do not call any tool simply "safe". Runtime-behavior checks are the next layer we are adding.

04RELATEDWORKS ALONGSIDE THIS

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