# pipen-mcp

> Use this tool when you need to integrate complex bioinformatics pipelines into AI workflows, allowing for automated execution and discovery of pipen pipelines through a user-friendly interface. It solves problems of workflow management and pipeline execution, providing inputs such as pipeline configurations and outputs like workflow results. Ideal for use cases requiring automated bioinformatics analysis and processing.

Canonical page: https://skillsregistry.net/skills/pwwang-pipen-mcp  
JSON: https://api.skillsregistry.net/v1/skills/pwwang-pipen-mcp

## Description

Exposes pipen bioinformatics pipelines as MCP tools, allowing AI assistants to discover and run complex workflows through a progressive disclosure interface.

## Trust

- **Trust score (0–1):** 0.99
- **Verification tier:** verified
- **Last scanned:** 2026-09-19

## Facts

- **Version:** 1.0.0
- **Skill type:** atomic
- **Execution layer:** mcp-remote
- **Runtime environment:** api
- **Category:** devops-ci
- **Updated:** 2026-09-19

## Source

- **Source listing:** [Glama](https://glama.ai/mcp/servers/xbuzfmz395)
- **Repository:** <https://github.com/pwwang/pipen-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": "pwwang-pipen-mcp"
    }
  }
}
```

REST: `GET https://api.skillsregistry.net/v1/skills/pwwang-pipen-mcp` · pull for local use: `GET https://api.skillsregistry.net/v1/skills/pwwang-pipen-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