Development in Galaxy

Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, …

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Join Galaxy Tools Developers special interest group for all aspects of Galaxy tool development.

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Material

You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides (slides) and tutorial (tutorial) buttons below.

Core

These are the core, foundational topics for Galaxy development.

Lesson Slides Hands-on Recordings
Contributing a New Feature to Galaxy Core
Debugging Galaxy
Writing Automated Tests for Galaxy

Architecture

These topics cover the architecture of Galaxy and how the different components interact with each other.

Lesson Slides Hands-on Recordings
Architecture 01 - Galaxy Ecosystem and Projects
Architecture 02 - Galaxy Project Management and Contribution
Architecture 03 - Galaxy Architecture Principles
Architecture 04 - Galaxy Files and Directory Structure
Architecture 05 - Galaxy Web Frameworks
Architecture 06 - Dependency Injection in Galaxy
Architecture 07 - Galaxy Task Management with Celery
Architecture 08 - Galaxy Application Components: Models, Managers, and Services
Architecture 09 - Galaxy Plugin Architecture
Architecture 10 - Galaxy File Sources Architecture
Architecture 11 - Galaxy Markdown Architecture
Architecture 12 - Galaxy Client Architecture
Architecture 13 - Galaxy Dependencies Management
Architecture 14 - Galaxy Startup Process
Architecture 15 - Galaxy Production Deployment
Architecture 16 - Galaxy Testing

API

Interacting with the Galaxy API

Lesson Slides Hands-on Recordings
Contributing to BioBlend as a developer
Scripting Galaxy using the API and BioBlend

Dependencies

These topics include information on how dependencies work in Galaxy and how to construct them.

Lesson Slides Hands-on Recordings
Prerequisites for building software/conda packages
Tool Dependencies and Conda
Tool Dependencies and Containers

Tool Development

Here you can learn everything about tool development in the Galaxy Ecosystem

Lesson Slides Hands-on Recordings
Adding and updating best practice metadata for Galaxy tools using the bio.tools registry
Creating Galaxy tools from Conda Through Deployment
Galaxy Interactive Tools
Tool Shed: sharing Galaxy tools
Tool development and integration into Galaxy
ToolFactory: Generating Tools From More Complex Scripts
ToolFactory: Generating Tools From Simple Scripts
nb2workflow: Generating Galaxy Tools From Jupyter Notebooks

Viz

Visualizations in Galaxy give you the ability to implement Javascript apps into Galaxy to analyse and visualise data.

Lesson Slides Hands-on Recordings
Generic plugins
JavaScript plugins

Advanced Features

These are more advanced features of Galaxy which you might want to develop for as they greatly expand the abilities of Galaxy.

Lesson Slides Hands-on Recordings
Data source integration
Galaxy Interactive Tours
Galaxy Webhooks
Setting up a dev Onedata instance

Frequently Asked Questions

Common questions regarding this topic have been collected on a dedicated FAQ page . Common questions related to specific tutorials can be accessed from the tutorials themselves.

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Community Resources

Community Home Maintainer Home

Editorial Board

This material is reviewed by our Editorial Board:

Gildas Le Corguillé avatar Gildas Le Corguilléorcid logoBérénice Batut avatar Bérénice Batut

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Contributors

This material was contributed to by:

Dannon Baker avatar Dannon BakerNiall Beard avatar Niall BeardClare Sloggett avatar Clare SloggettErik Schill avatar Erik SchillMarie Josse avatar Marie Josseorcid logoAlex Ostrovsky avatar Alex Ostrovskyorcid logoBjörn Grüning avatar Björn Grüningorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoSaskia Hiltemann avatar Saskia HiltemannWilliam Durand avatar William DurandDave B. avatar Dave B.orcid logoMartin Čech avatar Martin ČechLain Pavot avatar Lain Pavotorcid logoArmin Dadras avatar Armin Dadrasorcid logoPaul Zierep avatar Paul ZierepCyril Monjeaud avatar Cyril MonjeaudMatthias Bernt avatar Matthias Berntorcid logoCameron Hyde avatar Cameron HydeStéphanie Legras avatar Stéphanie Legrasorcid logoJohn Chilton avatar John Chiltonorcid logoJohn Davis avatar John DavisDavid López avatar David Lópezorcid logoClemens Blank avatar Clemens Blankorcid logoAnthony Bretaudeau avatar Anthony BretaudeauRoss Lazarus avatar Ross Lazarusorcid logoBérénice Batut avatar Bérénice Batutorcid logoJohan Gustafsson avatar Johan Gustafssonorcid logoWendi Bacon avatar Wendi Baconorcid logoNicola Soranzo avatar Nicola SoranzoGildas Le Corguillé avatar Gildas Le CorguilléDenys Savchenko avatar Denys SavchenkoEstelle Ancelet avatar Estelle Anceletorcid logoAndrei Variu avatar Andrei Variuorcid logoYvan Le Bras avatar Yvan Le Brasorcid logoŁukasz Opioła avatar Łukasz OpiołaSimon Bray avatar Simon Brayorcid logoHelena Rasche avatar Helena RascheLoraine Guéguen avatar Loraine GuéguenHervé Ménager avatar Hervé Ménagerorcid logoGianmauro Cuccuru avatar Gianmauro Cuccuruorcid logoNate Coraor avatar Nate CoraorAysam Guerler avatar Aysam GuerlerAssunta DeSanto avatar Assunta DeSantoYouri Hoogstrate avatar Youri HoogstrateNitesh Turaga avatar Nitesh Turaga

Funding

These individuals or organisations provided funding support for the development of this resource