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galaxy-dev-skills

v2026.9.17

Galaxy development skills: tool XML wrappers, Nextflow-to-Galaxy conversion, ToolShed revisions in usegalaxy-tools, UCSC track hubs and Galaxy Hub news posts. Mirror of galaxyproject/galaxy-skills (dev-skills/).

CodexClaude Code5 Skills

By The Galaxy ProjectLicense: MIT0 GitHub starsUpdated 5 days ago

Directory evidence

Runtimes
Codex and Claude Code
Parsed components
5 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-dev-skills 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-dev-skills@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-dev-skills” remain stable.

  • Codex: galaxy-dev-skills@agent-plugin-marketplace → galaxy-dev-skills@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-dev-skills/.

Plugin files

plugins/galaxy-dev-skills/
├── .codex-plugin/plugin.json
├── .claude-plugin/plugin.json
├── skills/hub-news-posts/SKILL.md
├── skills/nf-to-galaxy/SKILL.md
├── skills/tool-dev/SKILL.md
├── skills/trackhubs/SKILL.md
└── skills/update-usegalaxy-tool/SKILL.md

Included Skills5

hub-news-postsskills/hub-news-posts/SKILL.md

This skill should be used when creating Galaxy Hub news posts, writing content for galaxyproject.org/news, or converting content to Galaxy Hub markdown format.

nf-to-galaxyskills/nf-to-galaxy/SKILL.md

Use when converting Nextflow to Galaxy -- a single process to a Galaxy tool XML, a subworkflow or full pipeline to a Galaxy workflow, or an nf-core module. Routes to the right sub-skill and covers container-to-bioconda mapping and testing the result.

tool-devskills/tool-dev/SKILL.md

Galaxy tool development reference — creating new tools, testing, IUC review preparation, and updating existing tools. Use when authoring or modifying Galaxy tool wrappers for tools-iuc.

trackhubsskills/trackhubs/SKILL.md

Building UCSC Track Hubs (track hubs and assembly hubs) — bigBed/bigChain/bigMaf format requirements, composite-track rules, hub.txt / genomes.txt / trackDb.txt structure. Use when emitting a UCSC hub from Galaxy outputs, wrapping a hub-publishing tool, or debugging hubCheck failures.

update-usegalaxy-toolskills/update-usegalaxy-tool/SKILL.md

Add or update a ToolShed tool revision in the usegalaxy-tools repository -- resolving changeset revisions, editing .yml and .yml.lock toolset files, and handling adds, updates, moves, and removals across sections.

Plugin manifests2

plugins/galaxy-dev-skills/.codex-plugin/plugin.json
{
  "name": "galaxy-dev-skills",
  "version": "2026.9.17",
  "description": "Galaxy development skills: tool XML wrappers, Nextflow-to-Galaxy conversion, ToolShed revisions in usegalaxy-tools, UCSC track hubs and Galaxy Hub news posts. Mirror of galaxyproject/galaxy-skills (dev-skills/).",
  "author": {
    "name": "The Galaxy Project",
    "url": "https://galaxyproject.org"
  },
  "homepage": "https://github.com/galaxyproject/galaxy-skills",
  "repository": "https://github.com/galaxyproject/agentic-plugins",
  "license": "MIT",
  "keywords": [
    "galaxy",
    "bioinformatics",
    "skills",
    "tool-development",
    "nextflow"
  ],
  "skills": "./skills/",
  "interface": {
    "displayName": "Galaxy Dev Skills",
    "shortDescription": "Skills for building Galaxy tools and workflows",
    "longDescription": "Skills for the work that produces Galaxy itself rather than an analysis: writing and testing tool XML wrappers, converting Nextflow processes and pipelines, adding ToolShed revisions to usegalaxy-tools, publishing UCSC track hubs and writing Galaxy Hub news posts. Mirrored from galaxyproject/galaxy-skills.",
    "developerName": "The Galaxy Project",
    "category": "Developer Tools",
    "capabilities": [
      "Read",
      "Write"
    ],
    "websiteURL": "https://galaxyproject.org/",
    "defaultPrompt": [
      "Update the ncbi-datasets Galaxy tool to the latest version.",
      "Convert this Nextflow process to a Galaxy tool.",
      "Add a ToolShed revision for this tool to usegalaxy-tools."
    ]
  }
}
plugins/galaxy-dev-skills/.claude-plugin/plugin.json
{
  "name": "galaxy-dev-skills",
  "version": "2026.9.17",
  "description": "Galaxy development skills: tool XML wrappers, Nextflow-to-Galaxy conversion, ToolShed revisions in usegalaxy-tools, UCSC track hubs and Galaxy Hub news posts. Mirror of galaxyproject/galaxy-skills (dev-skills/).",
  "author": {
    "name": "The Galaxy Project",
    "url": "https://galaxyproject.org"
  },
  "homepage": "https://github.com/galaxyproject/galaxy-skills",
  "repository": "https://github.com/galaxyproject/agentic-plugins",
  "license": "MIT",
  "keywords": [
    "galaxy",
    "bioinformatics",
    "skills",
    "tool-development",
    "nextflow"
  ],
  "skills": [
    "./skills/nf-to-galaxy/nf-pipeline-to-galaxy-workflow",
    "./skills/nf-to-galaxy/nf-process-to-galaxy-tool",
    "./skills/nf-to-galaxy/nf-subworkflow-to-galaxy-workflow",
    "./skills/tool-dev/tool-selection-diagram"
  ]
}

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