jupyterlite-galaxy
OfficialBuild Galaxy notebooks with gxy in JupyterLite.
System Documentation
What problem does it solve?
Creating and sharing reproducible Galaxy dataset workflows within a lightweight JupyterLite environment can be difficult. This Skill provides a ready-made pattern to interact with Galaxy datasets directly from notebooks using the gxy package, reducing setup and context-switching.
Core Features & Use Cases
- Interact with Galaxy datasets in JupyterLite via the gxy library.
- Download datasets by HID, name, tag, regex, or ID; inspect datatype and download as needed.
- Upload results back to Galaxy histories and perform lightweight API calls within a notebook workflow.
- Use cases include exploratory data analysis in Galaxy, rapid notebook-based data preparation, and reproducible dataset workflows.
Quick Start
Use gxy to connect to a Galaxy history in a JupyterLite notebook, fetch a dataset by HID or name, and inspect or download it. For example, import gxy, then call gxy.get with a dataset identifier to obtain a local path for downstream analysis.
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: jupyterlite-galaxy Download link: https://github.com/galaxyproject/galaxy-skills/archive/main.zip#jupyterlite-galaxy Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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