gnomAD MCP Server

Instructions

Implementation Reference

• server.py:100-121 (handler)

  The get_variant_info function serves as the MCP tool handler. It is decorated with @mcp.tool() and uses the helper run_query_with_metadata to perform the data retrieval.

  @mcp.tool()
  def get_variant_info(
      dataset: str,
      reference_genome: str,
      variantId: str
  ) -> dict:
      """
      [gnomAD API] Retrieve variant information (v2/v3/v4)
      Args:
          dataset (str): gnomAD dataset ID (gnomad_r4/gnomad_r3/gnomad_r2_1)
          reference_genome (str): Reference genome (GRCh37 or GRCh38)
          variantId (str): Variant ID (e.g. 1-55051215-G-GA)
      Returns:
          dict: variant info
      """
  
      variables = {
          'dataset': dataset,
          'reference_genome': reference_genome,
          'variantId': variantId,
      }
      return run_query_with_metadata('variant', variables)