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:

Assunta DeSanto avatar Assunta DeSantoorcid logoHelena Rasche avatar Helena Rascheorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoBjörn Grüning avatar Björn Grüningorcid logoNate Coraor avatar Nate Coraororcid logoWendi Bacon avatar Wendi BaconCyril Monjeaud avatar Cyril MonjeaudDannon Baker avatar Dannon Bakerorcid logoArmin Dadras avatar Armin Dadrasorcid logoAndrei Variu avatar Andrei VariuDave B. avatar Dave B.orcid logoSaskia Hiltemann avatar Saskia HiltemannMatthias Bernt avatar Matthias BerntNitesh Turaga avatar Nitesh TuragaSimon Bray avatar Simon Brayorcid logoŁukasz Opioła avatar Łukasz OpiołaNiall Beard avatar Niall Beardorcid logoPaul Zierep avatar Paul Ziereporcid logoJohn Chilton avatar John ChiltonHervé Ménager avatar Hervé Ménagerorcid logoGianmauro Cuccuru avatar Gianmauro CuccuruStéphanie Legras avatar Stéphanie Legrasorcid logoClemens Blank avatar Clemens BlankClare Sloggett avatar Clare Sloggettorcid logoYvan Le Bras avatar Yvan Le Brasorcid logoBérénice Batut avatar Bérénice BatutMarie Josse avatar Marie JosseErik Schill avatar Erik SchillLoraine Guéguen avatar Loraine Guéguenorcid logoAlex Ostrovsky avatar Alex OstrovskyEstelle Ancelet avatar Estelle AnceletYouri Hoogstrate avatar Youri Hoogstrateorcid logoCameron Hyde avatar Cameron HydeWilliam Durand avatar William DurandLain Pavot avatar Lain Pavotorcid logoAnthony Bretaudeau avatar Anthony BretaudeauDavid López avatar David Lópezorcid logoMartin Čech avatar Martin ČechGildas Le Corguillé avatar Gildas Le CorguilléDenys Savchenko avatar Denys Savchenkoorcid logoJohan Gustafsson avatar Johan Gustafssonorcid logoJohn Davis avatar John DavisAysam Guerler avatar Aysam GuerlerRoss Lazarus avatar Ross Lazarusorcid logoNicola Soranzo avatar Nicola Soranzo

Funding

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