BioMCP

# API Keys Most BioMCP workflows run without credentials. Some enrichment and higher-rate access paths improve with API keys. ## Required for prediction section ### `ALPHAGENOME_API_KEY` Used by variant prediction lookups: ```bash export ALPHAGENOME_API_KEY="..." biomcp get variant "chr7:g.140453136A>T" predict ``` ## Optional enrichment keys ### `ONCOKB_TOKEN` Used for production OncoKB enrichment. If omitted, BioMCP uses the public/demo path when possible. ```bash export ONCOKB_TOKEN="..." biomcp get variant "BRAF V600E" ``` ### `NCI_API_KEY` Used for NCI CTS trial calls. ```bash export NCI_API_KEY="..." biomcp search trial -c melanoma --source nci ``` ### `NCBI_API_KEY` Improves rate limits for PubTator, PMC OA, and NCBI ID converter (3 → 10 req/sec). ```bash export NCBI_API_KEY="..." biomcp search article -g BRAF --limit 5 ``` ### `OPENFDA_API_KEY` Improves OpenFDA rate limits for drug safety lookups. ```bash export OPENFDA_API_KEY="..." biomcp search adverse-event --drug pembrolizumab --limit 5 ``` ## Key management guidance - Prefer environment variables over hardcoded values. - Do not commit secrets into source control. - Set keys in the same environment used by your MCP client. - Rotate keys when sharing machines or CI runners.