Contributing to the Galaxy Training Material

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (more than 7,000 in the ToolShed), it can be used by people without any computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable.
In 2016, the Galaxy Training Network decided to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy.

Material

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

Before you start: Designing your lessons

These tutorials will guide you on the pedagogy to create impactful training material

Lesson Slides Hands-on Recordings
Design and plan session, course, materials
Principles of learning and how they apply to training and teaching

Getting Started with the GTN

These tutorials will get you started with the basics needed to contribute to the GTN. First we will show you how you can build the GTN website on GitPod or locally, and then the basics of creating tutorials and slides.

Lesson Slides Hands-on Recordings
Running the GTN website online using GitHub CodeSpaces
Running the GTN website online using GitPod
Running the GTN website locally using the command line
Creating a new tutorial
Creating content in Markdown
Creating Slides
Updating tool versions in a tutorial

Advanced GTN Materials writing

Tutorials showing you how to use some advanced GTN features in your training materials.

Lesson Slides Hands-on Recordings
Adding auto-generated video to your slides
Including a new topic
Teaching Python
Tools, Data, and Workflows for tutorials

Contributing through GitHub

How to collaborate with the GTN

Lesson Slides Hands-on Recordings
Contributing with GitHub via command-line
Contributing with GitHub via its interface

Analyses using GTN data

Over the years publications about the GTN and GTN communities have been published, and used GTN (meta)data to do it. These tutorials will show you how to leverage some of the data already contained within the GTN, but beware, they generally require programming skills!

Lesson Slides Hands-on Recordings
Single Cell Publication - Data Analysis
Ruby
Single Cell Publication - Data Plotting
R rmarkdown-notebook jupyter-notebook

Other

Assorted Tutorials

Lesson Slides Hands-on Recordings
Adding Quizzes to your Tutorial
Creating Interactive Galaxy Tours
GTN Metadata
Generating PDF artefacts of the website
Overview of the Galaxy Training Material
Updating diffs in admin training
FAIR Galaxy Training Material
fair gtn training

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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Editorial Board

This material is reviewed by our Editorial Board:

orcid logoBérénice Batut avatar Bérénice Batut orcid logoBjörn Grüning avatar Björn Grüning

Contributors

This material was contributed to by:

Teresa Müller avatar Teresa Müller Pablo Moreno avatar Pablo Moreno orcid logoKrzysztof Poterlowicz avatar Krzysztof Poterlowicz Melissa Burke avatar Melissa Burke orcid logoPavankumar Videm avatar Pavankumar Videm Аrnaud Gingold avatar Аrnaud Gingold orcid logoChristine Hadrossek avatar Christine Hadrossek orcid logoMartin Čech avatar Martin Čech Marius van den Beek avatar Marius van den Beek orcid logoKatarzyna Kamieniecka avatar Katarzyna Kamieniecka Cyril Monjeaud avatar Cyril Monjeaud Allegra Via avatar Allegra Via Bazante Sanders avatar Bazante Sanders orcid logoDominique Green avatar Dominique Green orcid logoSonja Filiposka avatar Sonja Filiposka orcid logoPeter van Heusden avatar Peter van Heusden orcid logoAchim Winandi avatar Achim Winandi orcid logoSaskia Hiltemann avatar Saskia Hiltemann Niall Beard avatar Niall Beard Simon Bray avatar Simon Bray orcid logoCarolin Leister avatar Carolin Leister Donny Vrins avatar Donny Vrins orcid logoAnthony Bretaudeau avatar Anthony Bretaudeau William Durand avatar William Durand orcid logoVojdan Kjorveziroski avatar Vojdan Kjorveziroski orcid logoNicola Soranzo avatar Nicola Soranzo Gildas Le Corguillé avatar Gildas Le Corguillé orcid logoMarisa Loach avatar Marisa Loach Andrea Bagnacani avatar Andrea Bagnacani orcid logoJulia Jakiela avatar Julia Jakiela Mehmet Tekman avatar Mehmet Tekman orcid logoBjörn Grüning avatar Björn Grüning orcid logoFotis E. Psomopoulos avatar Fotis E. Psomopoulos orcid logoBérénice Batut avatar Bérénice Batut orcid logoLinelle Abueg avatar Linelle Abueg orcid logoLucille Delisle avatar Lucille Delisle orcid logoIrakleitos Souyioultzoglou avatar Irakleitos Souyioultzoglou orcid logoHelena Rasche avatar Helena Rasche orcid logoCristóbal Gallardo avatar Cristóbal Gallardo Patricia Palagi avatar Patricia Palagi orcid logoAnastas Mishev avatar Anastas Mishev orcid logoSimon Gladman avatar Simon Gladman orcid logoWendi Bacon avatar Wendi Bacon

Funding

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

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DASH UK
This Fellowship was funded through the ELIXIR-UK DaSH project as part of the UKRI Innovation Scholars: Data Science Training in Health and Bioscience call (DaSH). (MR/V038966/1). The project aims to embed Research Data Management (RDM) know-how into UK universities and institutes by producing and delivering training in FAIR data stewardship using ELIXIR-UK knowledge and resources.
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Skills4SEOSC
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Gallantries
This project (2020-1-NL01-KA203-064717) is funded with the support of the Erasmus+ programme of the European Union. Their funding has supported a large number of tutorials within the GTN across a wide array of topics.