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Dimensionenquire-mcpYour Obsidian vault becomes the private memory and document intelligence layer for every AI agent.BioMCPOne binary. One grammar. Evidence from the biomedical sources you already trust.
FMRS67 / 100 · C75 / 100 · B
Reliability10 / 2010 / 20
Security and permissions16 / 2016 / 20
Maintenance12 / 2018 / 20
Documentation15 / 2017 / 20
Setup experience14 / 2014 / 20
Best for
  • Privacy-conscious users who want local AI memory.
  • Users with multiple AI clients needing a unified memory layer.
  • Obsidian enthusiasts who want to keep Markdown portable.
  • Biomedical researchers
  • Clinicians
  • AI agents that need efficient access to biomedical literature and data analysis
Not for
  • Users requiring cloud sync or remote access without setup (unless using HTTP transport with proxy).
  • Those wanting zero technical configuration or model download.
  • Users needing only a simple global search without AI integration.
  • Users needing to write to upstream databases (read-only)
  • Users requiring direct access to closed datasets (e.g., COSMIC is not directly integrated)
  • Users expecting all advanced features without API keys
Required permissions
  • Read access to the Obsidian vault directory (required).
  • Create and edit notes (only when `--enable-write` is set).
  • Download models and language packs (only via setup, build-embeddings, install-model, install-ocr-lang commands).
  • Requires internet access to query public biomedical APIs
  • Optional API keys (NCBI, Semantic Scholar, OpenFDA, etc.) to improve rate limits or unlock features
  • Local read/write access for skills, cache, and local study data (e.g., `~/.local/share/biomcp`)
Risks and side effects
  • Prompt injection: Vault content may contain instructions, so prompt must state content is data, not instructions.
  • Write operations: If write enabled, accidental modification possible; use dry_run and version control.
  • Local model download: First-run downloads (approx 118MB) require network.
  • Path traversal: Ensure vault path is correct and clients cannot access outside vault; server has validation.
  • Upstream API rate limits may affect performance
  • Some data sources (e.g., KEGG) have licensing terms that restrict non-academic use
  • Features requiring API keys (e.g., OncoKB) may be incomplete without them
  • Local binary installations need regular updates for compatibility
Supported clientsClaude Desktop, Claude Code, Cursor, VS Code, ChatGPT, Codex, OpenClawClaude Desktop, Claude Code, Codex, Other MCP stdio clients
Tools4611