genefoundry — Claude Code MCP server: what it does, how to install
Routes 22 biomedical MCP servers through one HTTP endpoint and lets an agent discover tools by search. Use it for sources such as gnomAD, ClinVar, HPO, and VEP.
claude mcp add --transport http genefoundry https://genefoundry.org/mcpWhat genefoundry does
genefoundry puts 22 biomedical backends behind a single MCP connection. The agent does not receive a flat catalog of 285 tools: it searches with search_tools, then runs a selected namespaced tool through call_tool. Each backend can also expose a pinned entry point, which keeps its main operation reachable without relying on search ranking.
The router acts as a client for the backends and leaves their data unchanged. A hosted Streamable HTTP endpoint is available, so Claude Code can connect with claude mcp add --transport http genefoundry https://genefoundry.org/mcp. Running a private instance requires Python 3.14+, uv, backend URLs in .env, and GF_AUTH_MODE. This is for research use only, not clinical decision support, diagnosis, treatment, triage, or patient management.
What it helps with
- search the gnomAD backend for variant frequencies
- retrieve a variant’s clinical significance from ClinVar
- look up phenotype associations through HPO
- find variant consequence tools in VEP
- connect multiple biomedical MCP backends through one endpoint
Example prompts for the agent
- Use
search_toolsto find a ClinVar tool for a variant, then call the matching result. - Search with
search_toolsfor population frequency data in gnomAD and run the returned tool. - Use
search_toolsto locate an HPO tool for phenotype associations.
How to install genefoundry
Platform CLI: remote server
claude mcp add --transport http genefoundry https://genefoundry.org/mcpPlatform CLI: remote server
codex mcp add genefoundry --url https://genefoundry.org/mcpConfig file
{
"mcpServers": {
"genefoundry": {
"url": "https://genefoundry.org/mcp"
}
}
}Config file
{
"servers": {
"genefoundry": {
"type": "http",
"url": "https://genefoundry.org/mcp"
}
}
}Platform CLI: remote server
gemini mcp add -t http genefoundry https://genefoundry.org/mcpStep by step, with commands for each platform: How to add an MCP server to Claude Code, Codex, Cursor, VS Code, Gemini CLI and more
Questions about genefoundry
How do I install genefoundry in Claude Code?
Run claude mcp add --transport http genefoundry https://genefoundry.org/mcp. This adds the hosted HTTP server to Claude Code.
What does genefoundry do?
It presents 22 biomedical MCP backends through one server. An agent can discover tools with search_tools and execute a namespaced result with call_tool.
Is genefoundry suitable for clinical decisions?
No. It is intended for research and must not be used for diagnosis, treatment, triage, or patient management.
