UCSC Genome Browser MCP Server

Instructions

Implementation Reference

• ucsc-genome-mcp.py:362-368 (handler)

  Handler implementation for the 'list_genark_genomes' tool. It extracts parameters from arguments, maps 'max_items' to 'maxItemsOutput', builds the API URL for the /list/genarkGenomes endpoint, and fetches the data using make_api_request.

  elif name == "list_genark_genomes":
      params = {
          "genome": arguments.get("genome"),
          "maxItemsOutput": arguments.get("max_items")
      }
      url = build_api_url("/list/genarkGenomes", params)
      result = await make_api_request(url)

• ucsc-genome-mcp.py:113-129 (registration)

  Registration of the 'list_genark_genomes' tool in the list_tools() decorator, defining its name, description, and input schema.

  Tool(
      name="list_genark_genomes",
      description="List UCSC Genome Browser database genomes from assembly hub host (GenArk). Can also test for existence of a specific genome.",
      inputSchema={
          "type": "object",
          "properties": {
              "genome": {
                  "type": "string",
                  "description": "Specific genome to test for existence (optional)"
              },
              "max_items": {
                  "type": "integer",
                  "description": "Maximum number of items to return (default: 1000000)"
              }
          }
      }
  ),

• ucsc-genome-mcp.py:116-128 (schema)

  Input schema definition for the 'list_genark_genomes' tool, specifying parameters for genome (optional string) and max_items (optional integer).

  inputSchema={
      "type": "object",
      "properties": {
          "genome": {
              "type": "string",
              "description": "Specific genome to test for existence (optional)"
          },
          "max_items": {
              "type": "integer",
              "description": "Maximum number of items to return (default: 1000000)"
          }
      }
  }