Nf-core tools MCP (Unofficial)

This MCP provides a suite of tools for accessing nf-core tools for pipelines and modules: - Create a pipeline using the nf-core template - List nf-core modules - Create a module using the nf-core…

Local serverstdio

What is the Nf-core tools MCP (Unofficial) MCP Server?

Nf-core tools MCP (Unofficial) is an MCP project maintained in the flowuenne/mcp-nf-core repository. The maintainer describes its purpose as “This MCP provides a suite of tools for accessing nf-core tools for pipelines and modules: - Create a pipeline using the nf-core template - List…”. Read the project documentation for the complete scope.

Local setup

The project provides a local client configuration using uv. Follow the repository’s build and installation steps before copying it, and replace example paths with the paths on your own computer.

Source

Project documentation · Repository · Discovery listing. This profile records the public documentation checked on 2026-10-08.

How to install the Nf-core tools MCP (Unofficial) MCP Server

{
  "mcpServers": {
    "mix_server": {
      "command": "uv",
      "args": [
        "--directory",
        "[Full path to the server directory (this repo folder)]]",
        "run",
        "server.py"
      ]
    }
  }
}

From the project documentation. Replace placeholders and example paths before connecting.