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:

orcid logoBjörn Grüning avatar Björn GrüningHervé Ménager avatar Hervé Ménagerorcid logoJohan Gustafsson avatar Johan Gustafssonorcid logoAnthony Bretaudeau avatar Anthony BretaudeauMatthias Bernt avatar Matthias BerntMarie Josse avatar Marie Josseorcid logoSaskia Hiltemann avatar Saskia HiltemannYouri Hoogstrate avatar Youri HoogstrateWilliam Durand avatar William Durandorcid logoAlex Ostrovsky avatar Alex OstrovskyDenys Savchenko avatar Denys SavchenkoLain Pavot avatar Lain PavotDave B. avatar Dave B.Simon Bray avatar Simon BrayLoraine Guéguen avatar Loraine Guéguenorcid logoCameron Hyde avatar Cameron Hydeorcid logoYvan Le Bras avatar Yvan Le BrasErik Schill avatar Erik SchillEstelle Ancelet avatar Estelle AnceletCyril Monjeaud avatar Cyril Monjeaudorcid logoMartin Čech avatar Martin Čechorcid logoHelena Rasche avatar Helena RascheRoss Lazarus avatar Ross Lazarusorcid logoNate Coraor avatar Nate CoraorNitesh Turaga avatar Nitesh Turagaorcid logoJohn Chilton avatar John Chiltonorcid logoGianmauro Cuccuru avatar Gianmauro Cuccuruorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoŁukasz Opioła avatar Łukasz OpiołaDannon Baker avatar Dannon BakerStéphanie Legras avatar Stéphanie Legrasorcid logoArmin Dadras avatar Armin DadrasDavid López avatar David Lópezorcid logoPaul Zierep avatar Paul Ziereporcid logoJohn Davis avatar John DavisGildas Le Corguillé avatar Gildas Le Corguilléorcid logoBérénice Batut avatar Bérénice Batutorcid logoClemens Blank avatar Clemens BlankClare Sloggett avatar Clare Sloggettorcid logoAndrei Variu avatar Andrei VariuAysam Guerler avatar Aysam GuerlerNiall Beard avatar Niall Beardorcid logoWendi Bacon avatar Wendi Baconorcid logoNicola Soranzo avatar Nicola SoranzoAssunta DeSanto avatar Assunta DeSanto

Funding

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