@cyanheads/gnomad-genetics-mcp-server
by cyanheads
Server Configuration
Describes the environment variables required to run the server.
| Name | Required | Description | Default |
|---|---|---|---|
| NCBI_API_KEY | No | Optional NCBI key. Raises the E-utilities rate limit from 3 to 10 req/s. | |
| OTEL_ENABLED | No | Enable OpenTelemetry instrumentation. | false |
| MCP_AUTH_MODE | No | Auth mode: none, jwt, or oauth. | none |
| MCP_HTTP_PORT | No | Port for the HTTP server. | 3010 |
| MCP_LOG_LEVEL | No | Log level (RFC 5424). | info |
| CLINVAR_BASE_URL | No | NCBI E-utilities base URL for gnomad_search_clinvar. | https://eutils.ncbi.nlm.nih.gov/entrez/eutils |
| MCP_TRANSPORT_TYPE | No | Transport: stdio or http. | stdio |
| GNOMAD_API_BASE_URL | No | gnomAD GraphQL endpoint. Override for a private mirror or testing. | https://gnomad.broadinstitute.org/api |
| CANVAS_PROVIDER_TYPE | No | Set to duckdb to enable the spill/SQL path behind the list tools. When none, they return a capped inline preview. | none |
| GNOMAD_DEFAULT_DATASET | No | Dataset used when a tool call omits dataset (gnomad_r4 / gnomad_r3 / gnomad_r2_1 / exac). | gnomad_r4 |
| GNOMAD_MAX_CONCURRENCY | No | Cap on concurrent upstream requests — politeness against a community-funded API. | 2 |
| GNOMAD_MAX_VARIANT_BATCH | No | Maximum variant IDs accepted per gnomad_get_variant call. | 25 |
| GNOMAD_REQUEST_TIMEOUT_MS | No | Per-request timeout against the GraphQL endpoint, in milliseconds. | 30000 |
| GNOMAD_DATAFRAME_DROP_ENABLED | No | Gate for the opt-in gnomad_dataframe_drop tool. Off by default. | false |
Instructions
Guidance the server publishes about itself, which clients place ahead of the tool catalog so the model reads it before choosing anything.
This server publishes no instructions, or was last inspected before Glama recorded them.
Capabilities
Server capabilities have not been inspected yet.
Tools
Functions exposed to the LLM to take actions
| Name | Description |
|---|---|
No tools | |
Prompts
Interactive templates invoked by user choice
| Name | Description |
|---|---|
No prompts | |
Resources
Contextual data attached and managed by the client
| Name | Description |
|---|---|
No resources | |
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