Agent Plugins Marketplace
← All plugins

galaxy-mcp

v0.1.0

Galaxy MCP server (galaxy-mcp) plus the galaxy-connect setup skill.

CodexClaude Code1 Skill1 MCP serverstdio

By The Galaxy ProjectLicense: MIT0 GitHub starsUpdated 5 days ago

Directory evidence

Runtimes
Codex and Claude Code
Parsed components
2 skill or MCP entries
Source updated
Sep 18, 2026
Manifest status
Canonical path parsed

The directory validates manifest shape and source location. It does not execute the plugin or provide a security endorsement. Review the indexing methodology →

Install galaxy-mcp for Codex and Claude Code

Installs for the current user
codex plugin marketplace add galaxyproject/agentic-plugins
codex plugin marketplace upgrade galaxyproject
codex plugin add galaxy-mcp@galaxyproject

Paste and run these commands in a terminal with Codex. They add and refresh the galaxyproject catalog, then install this plugin.

Compatibility: the page URL and API slug “galaxy-mcp” remain stable.

  • Codex: galaxy-mcp@agent-plugin-marketplace → galaxy-mcp@galaxyproject

The installer fetches third-party code from the source repository shown on this page. This directory validates manifest structure and source location, but does not perform a security audit; review the manifest, components, and source before installing.

Get the source manually
git clone https://github.com/galaxyproject/agentic-plugins

Clone the source repository, then follow its setup instructions to add the plugin to a compatible client. The plugin root is plugins/galaxy-mcp/.

Plugin files

plugins/galaxy-mcp/
├── .codex-plugin/plugin.json
├── .claude-plugin/plugin.json
├── skills/galaxy-connect/SKILL.md
└── .mcp.json

Included Skills1

galaxy-connectskills/galaxy-connect/SKILL.md

Set up, verify and troubleshoot the connection between this agent and a Galaxy server through the galaxy-mcp MCP server. Use when the user wants to connect to Galaxy, configure a Galaxy URL or API key, check whether Galaxy tools are available, or when a Galaxy MCP call fails with a connection or authentication error.

MCP servers1

galaxystdio
command
uvx
args
galaxy-mcp

Plugin manifests2

plugins/galaxy-mcp/.codex-plugin/plugin.json
{
  "name": "galaxy-mcp",
  "version": "0.1.0",
  "description": "Galaxy MCP server (galaxy-mcp) plus the galaxy-connect setup skill.",
  "author": {
    "name": "The Galaxy Project",
    "url": "https://galaxyproject.org"
  },
  "homepage": "https://github.com/galaxyproject/agentic-plugins",
  "repository": "https://github.com/galaxyproject/agentic-plugins",
  "license": "MIT",
  "keywords": [
    "galaxy",
    "bioinformatics",
    "mcp"
  ],
  "skills": "./skills/",
  "mcpServers": {
    "galaxy": {
      "command": "uvx",
      "args": [
        "galaxy-mcp"
      ],
      "env_vars": [
        "GALAXY_URL",
        "GALAXY_API_KEY"
      ]
    }
  },
  "interface": {
    "displayName": "Galaxy MCP",
    "shortDescription": "Talk to a Galaxy server from Codex",
    "longDescription": "Runs the galaxy-mcp server (uvx galaxy-mcp) so Codex can list histories, search and run tools, upload data and invoke workflows on your Galaxy server. Reads GALAXY_URL and GALAXY_API_KEY from your environment.",
    "developerName": "The Galaxy Project",
    "category": "Developer Tools",
    "capabilities": [
      "Read",
      "Write"
    ],
    "websiteURL": "https://galaxyproject.org/",
    "defaultPrompt": [
      "Connect to Galaxy and show my recent histories.",
      "Find a Galaxy tool for read trimming and run it.",
      "Check my Galaxy connection is working."
    ]
  }
}
plugins/galaxy-mcp/.claude-plugin/plugin.json
{
  "name": "galaxy-mcp",
  "version": "0.1.0",
  "description": "Galaxy MCP server (galaxy-mcp) preconfigured with your Galaxy URL and API key, plus the galaxy-connect skill for setup, verification and troubleshooting.",
  "author": {
    "name": "The Galaxy Project",
    "url": "https://galaxyproject.org"
  },
  "homepage": "https://github.com/galaxyproject/agentic-plugins",
  "repository": "https://github.com/galaxyproject/agentic-plugins",
  "license": "MIT",
  "keywords": [
    "galaxy",
    "bioinformatics",
    "mcp"
  ],
  "mcpServers": "./mcp/claude.json",
  "userConfig": {
    "galaxy_url": {
      "type": "string",
      "title": "Galaxy URL",
      "description": "Base URL of the Galaxy server to connect to, e.g. https://usegalaxy.org",
      "default": "https://usegalaxy.org",
      "required": true
    },
    "galaxy_api_key": {
      "type": "string",
      "title": "Galaxy API key",
      "description": "Your API key for that server (Galaxy: User > Preferences > Manage API Key)",
      "sensitive": true,
      "required": true
    }
  }
}

For maintainers

If you maintain this plugin, link to this source-backed listing from your README so users can review its manifest and indexed components.

[galaxy-mcp on Agent Plugins Marketplace](https://pluginsmp.com/plugins/galaxy-mcp)