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How to add gget-mcp to Claude Desktop

Bioinformatics MCP server wrapping the gget toolkit for gene, sequence, structure, and enrichment queries. Paste the config into ~/Library/Application Support/Claude/claude_desktop_config.json and restart Claude Desktop.

Last updated June 14, 2026 · 29★ · stdio · no auth

Claude Desktop config for gget-mcp

uvx --from gget-mcp@latest stdio
{
  "mcpServers": {
    "gget-mcp": {
      "command": "uvx",
      "args": [
        "--from",
        "gget-mcp@latest",
        "stdio"
      ]
    }
  }
}

Requires `uv` (the Python package runner). Install it from https://docs.astral.sh/uv/ if `uvx` is not found.

Setup steps

  1. 1Open Claude Desktop → Settings → Developer → Edit Config (this opens ~/Library/Application Support/Claude/claude_desktop_config.json).
  2. 2Paste the gget-mcp config below under the top-level "mcpServers" key.
  3. 3Fill in any placeholder secrets (API keys, paths) in the snippet.
  4. 4Save the file, then fully quit and reopen Claude Desktop.
  5. 5Open a chat and confirm gget-mcp's tools appear under the 🔌 tools menu.

Before you start

  • uv / uvx (or Python 3.10+) to run the server
  • Stable internet connection (gget tools query external genomic databases and web services)
  • An MCP-compatible client such as Claude Desktop, Cursor, or Windsurf

What gget-mcp can do in Claude Desktop

gget_search

Find Ensembl IDs associated with search terms.

gget_info

Fetch detailed information for Ensembl IDs.

gget_seq

Retrieve nucleotide or amino acid sequences (supports translate=True for protein).

gget_ref

Get reference genome information from Ensembl.

gget_blast

BLAST nucleotide or amino acid sequences to identify their origin.

gget_blat

Find the genomic locations of sequences.

gget_muscle

Align multiple sequences (MUSCLE) and identify conserved regions.

gget_archs4

Get gene expression data from ARCHS4 across tissues.

Security

No API key is required for the core server, but many gget tools query external web services and databases that may be rate-limited or temporarily unavailable. The optional LLM-based 'judge' tests require API keys (e.g. GEMINI_API_KEY) and may incur costs, but these are for development only and are not needed to run the server.

gget-mcp + Claude Desktop FAQ

Where is the Claude Desktop config file?

Claude Desktop reads MCP servers from ~/Library/Application Support/Claude/claude_desktop_config.json. Paste the gget-mcp config there under the "mcpServers" key and restart the client.

Is gget-mcp safe to use with Claude Desktop?

No API key is required for the core server, but many gget tools query external web services and databases that may be rate-limited or temporarily unavailable. The optional LLM-based 'judge' tests require API keys (e.g. GEMINI_API_KEY) and may incur costs, but these are for development only and are not needed to run the server.

Do I need an API key?

No. The core server requires no API key. Many tools query external public databases, so an internet connection is needed. Only the optional development 'judge' tests require LLM API keys.

Which transport modes are supported?

STDIO (recommended for MCP clients and for saving large outputs to disk), HTTP (default port 3002, endpoint /mcp, docs at /docs), and SSE.

Is this an official gget tool?

No. gget-mcp is built by the Longevity Genie project and wraps the gget library from pachterlab; it is a community/third-party MCP wrapper.

View repo Full gget-mcp page