galaxy-mcp

local MCP server

Installation

Terminal

claude mcp add galaxy-mcp -e GALAXY_URL=... -e GALAXY_API_KEY=... -- uvx galaxy-mcp

Run in your project folder. Add --scope user to use it everywhere.

Claude Desktop, Cursor & other clients

Add to claude_desktop_config.json or .cursor/mcp.json.

{
  "mcpServers": {
    "galaxy-mcp": {
      "command": "uvx",
      "args": [
        "galaxy-mcp"
      ],
      "env": {
        "GALAXY_URL": "...",
        "GALAXY_API_KEY": "..."
      }
    }
  }
}

Fill in the environment variables with your own credentials.

Summary

MCP server for Galaxy bioinformatics platform - connect, execute tools, and manage workflows

Questions

galaxy-mcp is a local MCP server distributed as the pypi package galaxy-mcp.

Run: claude mcp add galaxy-mcp -e GALAXY_URL=... -e GALAXY_API_KEY=... -- uvx galaxy-mcp

Run: codex mcp add galaxy-mcp --env GALAXY_URL=... --env GALAXY_API_KEY=... -- uvx galaxy-mcp

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