{"server":{"$schema":"https://static.modelcontextprotocol.io/schemas/2025-12-11/server.schema.json","name":"io.github.trentleslie/biomapper","description":"Resolve metabolite, lipid, protein, gene and lab names to knowledge-graph IDs.","title":"BioMapper","repository":{"url":"https://github.com/Phenome-Health/biomapper","source":"github"},"version":"1.6.2","websiteUrl":"https://github.com/Phenome-Health/biomapper#use-from-an-agent-mcp","packages":[{"registryType":"pypi","registryBaseUrl":"https://pypi.org","identifier":"biomapper","version":"1.6.2","runtimeHint":"uvx","transport":{"type":"stdio"},"environmentVariables":[{"description":"Folders map_file may read and write, path-separated (needed when the client shares no roots)","name":"BIOMAPPER_MCP_ROOTS"},{"description":"Optional API key; the hosted deployment is keyless","isSecret":true,"name":"BIOMAPPER_API_KEY"},{"description":"Override the API root (staging or a local engine)","name":"BIOMAPPER_BASE_URL"},{"description":"Where job state lives (default ~/.cache/biomapper/mcp)","name":"BIOMAPPER_MCP_HOME"}]}]},"_meta":{"io.modelcontextprotocol.registry/official":{"status":"active","statusChangedAt":"2026-11-04T22:57:17.958052Z","publishedAt":"2026-11-04T22:57:17.958052Z","updatedAt":"2026-11-04T22:57:17.958052Z","isLatest":true}}}
