# nf-core MCP Server

> Use this tool when you need to manage and navigate nf-core bioinformatics pipeline repositories, solving problems of pipeline discovery and configuration. It provides list, search, and explore operations on pipeline configurations, workflows, and modules, accepting repository data as input and outputting relevant pipeline information. Ideal for bioinformatics workflows, use it to streamline pipeline management and optimization.

Canonical page: https://skillsregistry.net/skills/wjlim-nf-core-mcp  
JSON: https://api.skillsregistry.net/v1/skills/wjlim-nf-core-mcp

## Description

Enables users to manage and navigate nf-core bioinformatics pipeline repositories, allowing list, search, and explore operations on pipeline configurations, workflows, and modules.

## Trust

- **Trust score (0–1):** 0.69
- **Verification tier:** scanned
- **Last scanned:** 2026-09-02

## Facts

- **Version:** 1.0.0
- **Skill type:** atomic
- **Execution layer:** mcp-remote
- **Runtime environment:** api
- **Category:** devops-ci
- **Updated:** 2026-09-02

## Source

- **Source listing:** [Glama](https://glama.ai/mcp/servers/kuf4ci21ut)
- **Repository:** <https://github.com/wjlim/nf-core_mcp>

## Use it

Resolve this record through the SkillsRegistry MCP server (no auth, read-only):

```
claude mcp add --transport http --scope user skillsregistry https://api.skillsregistry.net/mcp
```

```json
{
  "jsonrpc": "2.0",
  "id": 1,
  "method": "tools/call",
  "params": {
    "name": "get_skill",
    "arguments": {
      "slug": "wjlim-nf-core-mcp"
    }
  }
}
```

REST: `GET https://api.skillsregistry.net/v1/skills/wjlim-nf-core-mcp` · pull for local use: `GET https://api.skillsregistry.net/v1/skills/wjlim-nf-core-mcp/pull`

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SkillsRegistry indexes agent skills from public registries and GitHub. Skills we have analysed are scanned with Circle-IR and scored on six dimensions; each listing states its scan coverage. More: https://skillsregistry.net/llms.txt