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 logoNate Coraor avatar Nate CoraorErik Schill avatar Erik SchillHervé Ménager avatar Hervé MénagerRoss Lazarus avatar Ross LazarusDannon Baker avatar Dannon BakerMatthias Bernt avatar Matthias Berntorcid logoJohan Gustafsson avatar Johan GustafssonSimon Bray avatar Simon Brayorcid logoBjörn Grüning avatar Björn Grüningorcid logoHelena Rasche avatar Helena Rascheorcid logoGianmauro Cuccuru avatar Gianmauro CuccuruAysam Guerler avatar Aysam Guerlerorcid logoŁukasz Opioła avatar Łukasz OpiołaDenys Savchenko avatar Denys SavchenkoYouri Hoogstrate avatar Youri HoogstrateGildas Le Corguillé avatar Gildas Le CorguilléDave B. avatar Dave B.Estelle Ancelet avatar Estelle AnceletDavid López avatar David Lópezorcid logoAlex Ostrovsky avatar Alex OstrovskyMarie Josse avatar Marie Josseorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoBérénice Batut avatar Bérénice BatutNiall Beard avatar Niall Beardorcid logoClemens Blank avatar Clemens BlankClare Sloggett avatar Clare Sloggettorcid logoArmin Dadras avatar Armin DadrasLain Pavot avatar Lain Pavotorcid logoWendi Bacon avatar Wendi Baconorcid logoYvan Le Bras avatar Yvan Le Brasorcid logoNicola Soranzo avatar Nicola Soranzoorcid logoCristóbal Gallardo avatar Cristóbal GallardoNitesh Turaga avatar Nitesh Turagaorcid logoJohn Chilton avatar John Chiltonorcid logoAndrei Variu avatar Andrei Variuorcid logoAnthony Bretaudeau avatar Anthony BretaudeauCyril Monjeaud avatar Cyril Monjeaudorcid logoMartin Čech avatar Martin ČechAssunta DeSanto avatar Assunta DeSantoorcid logoCameron Hyde avatar Cameron Hydeorcid logoJohn Davis avatar John DavisLoraine Guéguen avatar Loraine GuéguenStéphanie Legras avatar Stéphanie LegrasWilliam Durand avatar William Durandorcid logoPaul Zierep avatar Paul Zierep

Funding

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