gnomAD MCP Server

Instructions

Implementation Reference

• server.py:124-144 (handler)

  The `get_clinvar_variant_info` tool handler, implemented in `server.py` using the FastMCP decorator. It queries the `clinvar_variant` metadata via `run_query_with_metadata`.

  def get_clinvar_variant_info(
      dataset: str,
      reference_genome: str,
      variant_id: str
  ) -> dict:
      """
      [gnomAD API] Retrieve ClinVar variant info (v2/v3/v4)
      Args:
          dataset (str): gnomAD dataset ID (gnomad_r4/gnomad_r3/gnomad_r2_1)
          reference_genome (str): Reference genome (GRCh37 or GRCh38)
          variant_id (str): Variant ID
      Returns:
          dict: ClinVar info
      """
  
      variables = {
          'dataset': dataset,
          'reference_genome': reference_genome,
          'variant_id': variant_id,
      }
      return run_query_with_metadata('clinvar_variant', variables)