Contributing to the Galaxy Training Material

Jekyll 2025-04-27T00:00:00+00:00 https://training.galaxyproject.org/training-material/topics/contributing/feed.xml Contributing to the Galaxy Training Material Recently added tutorials, slides, FAQs, and events in the contributing topic https://training.galaxyproject.org/training-material/assets/images/GTN-60px.png 📰 Giessen joins the Galaxy Training Academy 2025 with on site support https://training.galaxyproject.org/training-material/news/2025/04/27/gta-giessen-localhub.html 2025-04-27T00:00:00+00:00

🌠 Giessen joins the Galaxy Training Academy 2025 with on site support 🎉

Teresa Müller https://training.galaxyproject.org/training-material/hall-of-fame/teresa-m/ Jochen Blom https://training.galaxyproject.org/training-material/hall-of-fame/jochenblom/ 🛤️ Onboarding for new contributors https://training.galaxyproject.org/training-material/learning-pathways/onboarding-contributing.html 2025-04-22T17:29:02+00:00

This learning path aims to teach you how to contribute to GTN training materials. From editing typos to rendering test GTN sites, you will progress from being a user to a contributor. For support throughout these tutorials, join our Galaxy [training network on Matrix](https://matrix.to/#/#Galaxy-Training-Network_Lobby:gitter.im) to ask questions!

📰 Galaxy Training Academy 2025 - Register now 🎉 https://training.galaxyproject.org/training-material/news/2025/03/26/gta-registration-open.html 2025-03-26T00:00:00+00:00

🌠 Join the GTA2025 and learn how to analyze your data using Galaxy

Teresa Müller https://training.galaxyproject.org/training-material/hall-of-fame/teresa-m/ 📰 Galaxy meets Onedata — distributed storage for science https://training.galaxyproject.org/training-material/news/2025/03/17/galaxy-meets-onedata.html 2025-03-17T00:00:00+00:00

Thanks to the efforts undertaken in the

Łukasz Opioła https://training.galaxyproject.org/training-material/hall-of-fame/lopiola/ 📚 Preview the GTN website as you edit your training material https://training.galaxyproject.org/training-material/topics/contributing/tutorials/rendering_gtn/tutorial.html 2025-03-14T13:13:52+00:00

If you are working on training materials, you will likely want to preview your changes as you go! You have a few options on how to do this.

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Teresa Müller https://training.galaxyproject.org/training-material/hall-of-fame/teresa-m/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ Nils Mittler https://training.galaxyproject.org/training-material/hall-of-fame/mittler-works/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Martin Čech https://training.galaxyproject.org/training-material/hall-of-fame/martenson/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Armin Dadras https://training.galaxyproject.org/training-material/hall-of-fame/dadrasarmin/ ❓ Posting issues and ideas for the Galaxy Community https://training.galaxyproject.org/training-material/topics/contributing/faqs/where-to-report.html 2025-03-13T15:29:33+00:00

Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ 📰 Call for Trainers and Helpers for the Galaxy Training Academy 2025 https://training.galaxyproject.org/training-material/news/2025/02/14/gtn2025-call-trainer.html 2025-02-14T00:00:00+00:00

🌠 Join the GTA2025 and support the event

Teresa Müller https://training.galaxyproject.org/training-material/hall-of-fame/teresa-m/ 📰 GTN's Gift for 2024 https://training.galaxyproject.org/training-material/news/2024/12/19/community_page.html 2024-12-19T00:00:00+00:00

Community Pages

Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Organizing GTA2025: Give us feedback and your availability! https://training.galaxyproject.org/training-material/news/2024/12/17/gta-feedback.html 2024-12-17T00:00:00+00:00

Give us feedback and your availability for the GTA 2025

Teresa Müller https://training.galaxyproject.org/training-material/hall-of-fame/teresa-m/ ❓ Slow incremental builds https://training.galaxyproject.org/training-material/topics/contributing/faqs/gtn-slow-incremental.html 2024-12-13T15:51:44+00:00

Sometimes cleaning Jekyll’s cache can improve slow (~60s) incremental build times. jekyll clean will do this. If you continue to experience --incremental build (make serve-quick) time issues, please let us know!

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ ❓ What is an Architectural Decision Record (ADR)? https://training.galaxyproject.org/training-material/topics/contributing/faqs/gtn-adr.html 2024-12-13T15:51:44+00:00

ADRs are documents that captures an important architectural decision made along with its context and consequences.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ ❓ GTN Architectural Decision Record Template https://training.galaxyproject.org/training-material/topics/contributing/faqs/gtn-adr-template.html 2024-12-13T15:51:44+00:00

This is based on Markdown Architectural Decision Record and lets us record important decisions.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ ❓ Updating the default branch from master to main https://training.galaxyproject.org/training-material/topics/contributing/faqs/github-fork-master-main.html 2024-12-04T15:39:58+00:00

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ 📰 Credit where it's due: GTN Reviewers in the spotlight https://training.galaxyproject.org/training-material/news/2024/12/02/reviewing.html 2024-12-02T00:00:00+00:00

We would like to recognise and thank all of the reviewers who have contributed to the GTN tutorials; your efforts are greatly appreciated, and we are grateful for your contributions to the GTN community. Today, we are highlighting your efforts on every single learning material across the GTN.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📚 Updating tool versions in a tutorial https://training.galaxyproject.org/training-material/topics/contributing/tutorials/updating_tutorial/tutorial.html 2024-11-29T07:42:27+00:00

Here, we provide a clear set of instructions for updating a GTN tutorial that uses the Galaxy interface for performing analysis. The GTN, and Galaxy, have a number of features to make it as reproducible and shareable as possible, so navigating what needs to be done for an overall update may feel daunting - but not anymore!

Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ Julia Jakiela https://training.galaxyproject.org/training-material/hall-of-fame/wee-snufkin/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ 📚 Single Cell Publication - Data Analysis https://training.galaxyproject.org/training-material/topics/contributing/tutorials/meta-analysis-data/tutorial.html 2024-11-07T14:54:57+00:00

Extracting data from the GTN’s Git history isn’t that difficult, but it requires some internal knowledge of how the GTN’s Jekyll-based codebase works. Here we’ll document what we’ve done!

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📚 Single Cell Publication - Data Plotting https://training.galaxyproject.org/training-material/topics/contributing/tutorials/meta-analysis-plot/tutorial.html 2024-11-07T14:54:57+00:00

We’ll use some ggplot and tidyverse code to plot the data we collected in part 1

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ ❓ Is there a certification available for the FAIR-by-Design Methodology? https://training.galaxyproject.org/training-material/topics/contributing/tutorials/fair-by-design/faqs/FAQ-L1.html 2024-10-17T09:13:36+00:00

There is no specific certification regarding the implementation of the FAIR-by-Design Methodology when developing learning materials for GTN.

Anastas Mishev https://training.galaxyproject.org/training-material/hall-of-fame/amisev1971/ ❓ Can the FAIR-by-Design Methodology be used for FAIR development of other types of resources? https://training.galaxyproject.org/training-material/topics/contributing/tutorials/fair-by-design/faqs/FAQ-C2.html 2024-10-17T09:13:36+00:00

The FAIR-by-Design Methodology stages can be relatively easily adapted to the processes for designing other FAIR objects.

Anastas Mishev https://training.galaxyproject.org/training-material/hall-of-fame/amisev1971/ ❓ Can this tutorial be adapted to other instructional development platforms? https://training.galaxyproject.org/training-material/topics/contributing/tutorials/fair-by-design/faqs/FAQ-C1.html 2024-10-17T09:13:36+00:00

The tutorial has been specifically adapted to the rules and options available in GTN. However, the general FAIR-by-Design Methodology is platform agnostic and can be applied to any environment.

Sonja Filiposka https://training.galaxyproject.org/training-material/hall-of-fame/sonjafiliposka/ ❓ Input Histories & Answer Keys https://training.galaxyproject.org/training-material/topics/contributing/faqs/input-and-answer-keys.html 2024-10-04T10:16:33+00:00

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ ❓ Annotating Pre-requisites https://training.galaxyproject.org/training-material/topics/contributing/faqs/why-prerequisites.html 2024-10-02T15:54:11+00:00

If you are adding a tutorial, annotating the pre-requisites is an important task! It will help ensure learners know what they need to know before starting the tutorial. They also let instructors plan a schedule optimally.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ ❓ Using the new Contributions Annotation framework https://training.galaxyproject.org/training-material/topics/contributing/faqs/new-contributions.html 2024-10-02T15:54:11+00:00

If you are writing a tutorial or slides, there are two ways to annotate contributions:

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Simplifying GTN contribution with Google Forms https://training.galaxyproject.org/training-material/news/2024/07/17/google-forms.html 2024-07-17T00:00:00+00:00

Since the last time we announced GTN news posting via Google Form, we’ve found that this has been an excellent fit for the community and decided to greatly expand the use of Google Forms for GTN contributions.

We recently presented the GTN at the 2024 Galaxy Community Conference. This presentation was a summary of the updates and new features that were added to the GTN in the past year.

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ 📰 GTN Video Library 2.0: 107 hours of learning across 154 videos https://training.galaxyproject.org/training-material/news/2024/06/14/gtn-video-library.html 2024-06-14T00:00:00+00:00

Many GTN tutorials already have recordings. These recordings were made by members of the community for a variety of (online) training events.

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 From GTN Intern to Tutorial Author to Bioinformatician https://training.galaxyproject.org/training-material/news/2024/06/13/from-gtn-intern-to-tutorial-author-to-bioinformatician.html 2024-06-13T00:00:00+00:00

With growing access and interest in sequencing data, Galaxy is a knight in shining armor for wet lab scientists hoping to analyze their own data. With long term intentions of increasing access to bioinformatic analyses, the Galaxy Training Network (GTN) creates a safe space where non-computer-scientists may analyze their own data and even learn to code: an invaluable skill in today’s scientific world. Galaxy introduced me to brand new skills as an undergraduate and ultimately changed the trajectory of my career. Here is my story as a biology undergraduate with no coding experience turned GTN contributor &, eventually, coding bioinformatician: thanks to Galaxy.

Camila Goclowski https://training.galaxyproject.org/training-material/hall-of-fame/Camila-goclowski/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ 📰 Open Call for Trainers for the Galaxy Training Academy https://training.galaxyproject.org/training-material/news/2024/06/11/GalaxyTrainingAcademy-Call-Contribution.html 2024-06-11T00:00:00+00:00

We are happy to announce the Galaxy Training Academy 2024, a global online training event, where learners can get to know Galaxy and learn how to analyze data for various research topics.

Teresa Müller https://training.galaxyproject.org/training-material/hall-of-fame/teresa-m/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Celebrating the Milestone: 400 Tutorials on the Galaxy Training Network! https://training.galaxyproject.org/training-material/news/2024/06/06/400-tutorials-milestone.html 2024-06-06T00:00:00+00:00

The Galaxy Training Network (GTN) has reached an exciting milestone: our 400th tutorial! This achievement is a testament to the dedication and hard work of our community of educators, researchers, and developers over the last 9 years.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Integrating the Galaxy Training Network into the Tool Form https://training.galaxyproject.org/training-material/news/2024/06/04/tool-form-integration.html 2024-06-04T00:00:00+00:00

For many tools in Galaxy, the GTN offers a variety of guides, practical examples, and help throughout it’s many tutorials.

Laila Los https://training.galaxyproject.org/training-material/hall-of-fame/ElectronicBlueberry/ Dannon Baker https://training.galaxyproject.org/training-material/hall-of-fame/dannon/ Laila Los https://training.galaxyproject.org/training-material/hall-of-fame/ElectronicBlueberry/ 📰 All GTN training data are now automatically mirrored via Onedata https://training.galaxyproject.org/training-material/news/2024/06/03/onedata.html 2024-06-03T00:00:00+00:00

As part of the EuroScienceGateway and in cooperation with Onedata and EGI we are providing all GTN training data on a publicly accessible cloud storage.

Polina Polunina https://training.galaxyproject.org/training-material/hall-of-fame/plushz/ 📰 Introducing GTN Event Pages https://training.galaxyproject.org/training-material/news/2024/05/22/introducing-gtn-event-pages.html 2024-05-22T00:00:00+00:00

Are you organizing a training event using GTN materials? You can now add your event directly to the GTN!

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Perfectly FAIR Training! https://training.galaxyproject.org/training-material/news/2024/05/13/fair.html 2024-05-13T00:00:00+00:00

We are happy to report that over the years of our fruitful collaboration with ELIXIR TeSS, all GTN materials should receive a perfect score on the FAIR-Checker.

At the Galaxy Training Network we are really committed to ensuring our training materials are Findable, Accessible, Interoperable, and Reusable.

Howdy teachers and support staff! We are exploring displaying GTN content directly in the Galaxy Help site, furthering the integration between the GTN and the Galaxy community infrastructure.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Jennifer Hillman-Jackson https://training.galaxyproject.org/training-material/hall-of-fame/jennaj/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ Martin Čech https://training.galaxyproject.org/training-material/hall-of-fame/martenson/ Jennifer Hillman-Jackson https://training.galaxyproject.org/training-material/hall-of-fame/jennaj/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Simplified GTN News submission via Google Form https://training.galaxyproject.org/training-material/news/2024/01/29/simplified-gtn-news-submission-via-google-form.html 2024-01-29T00:00:00+00:00

Based on user feedback of the difficulties of the GTN news submission process we have significantly simplified and removed the need for manually editing a YAML file by providing a quick and easy Google Form

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 GTN Helper Bots Connect the Galaxy https://training.galaxyproject.org/training-material/news/2023/12/20/matrix-bots.html 2023-12-20T00:00:00+00:00

🤖💬 Bleep bloop! Good news everyone! We have deployed some bots to enable our Matrix regulars

Mehmet Tekman https://training.galaxyproject.org/training-material/hall-of-fame/mtekman/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Mehmet Tekman https://training.galaxyproject.org/training-material/hall-of-fame/mtekman/ 📰 Tutorial Feature: Easier launching of WorkflowHub & Dockstore Workflows https://training.galaxyproject.org/training-material/news/2023/12/12/tutorial-run-wfh-ds.html 2023-12-12T00:00:00+00:00

While most GTN tutorials include their associated workflow directly in the GTN, some may wish to write a tutorial about running workflows from WorkflowHub, e.g. leveraging the IWC workflow collection.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 GTN has left Twitter/X as of October https://training.galaxyproject.org/training-material/news/2023/11/21/mastodon.html 2023-11-21T00:00:00+00:00

We did not formally announce it at the time, but the Galaxy Training Network

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Feedback: Easy slide recordings https://training.galaxyproject.org/training-material/news/2023/11/21/video.html 2023-11-21T00:00:00+00:00

I recently imported Friends Don’t Let Friends Make Bad Graphs, a fantastic and educational github repository showcasing some common visualisation mistakes, that was available under an open license, to the GTN. Then the GTN automatically made a video for me.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Update: Workflow List now searches WorkflowHub.eu, advanced query syntax https://training.galaxyproject.org/training-material/news/2023/11/20/workflow-search.html 2023-11-20T00:00:00+00:00

WorkflowHub

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Paul Zierep https://training.galaxyproject.org/training-material/hall-of-fame/paulzierep/ Wolfgang Maier https://training.galaxyproject.org/training-material/hall-of-fame/wm75/ ❓ Preparing materials for asynchronous learning: Tips https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-content/faqs/remote-teaching.html 2023-11-02T09:28:11+00:00

The use of snippets is extremely important for asynchronous, remote learning. In this situation as students do not have a teacher immediately on hand, and likely do not have friends or colleagues sitting working with them, they will rely on these boxes to refresh their knowledge and know what to do.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ ❓ Preparing materials for asynchronous learning: Self-Study https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-content/faqs/remote-teaching-selfstudy.html 2023-11-02T09:28:11+00:00

In the context of remote trainings, where a teacher isn’t synchronously available, ensuring that you have questions throughout your materials for students to check their understanding is incredibly key.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ ❓ Preparing materials for asynchronous learning: FAQs https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-content/faqs/remote-teaching-faqs.html 2023-11-02T09:28:11+00:00

When you are running a remote, asynchronous lesson, you’ll want to be sure you collect all student questions and add them back to your tutorial afterwards, as FAQs. This will help other learners as they progress through the materials, and can give you a very easy URL to point your learners to if they get stuck on a particular task.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ ❓ Preparing materials for asynchronous learning: CYOA https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-content/faqs/remote-teaching-cyoa.html 2023-11-02T09:28:11+00:00

If you are running a remote training, and expect your users to follow a specific path, be certain to include the URL parameter to select the pathway to avoid student confusion. Please note that all tutorials using a CYOA should be tagged which will give you a heads up as a trainer.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: GTN User Preferences https://training.galaxyproject.org/training-material/news/2023/07/20/prefs.html 2023-07-20T00:00:00+00:00

We have added a new “User Preferences” page for our GTN users! This gives you more control over both how the GTN looks, and works, for you.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: Pan-Galactic Tool Search https://training.galaxyproject.org/training-material/news/2023/06/07/pan-galactic-search.html 2023-06-07T00:00:00+00:00

Did you ever want to run a tool, but not know where it might be available?

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 GTN Celebrates Pride Month: Alan Hart & M. Tuberculosis https://training.galaxyproject.org/training-material/news/2023/06/01/hart.html 2023-06-01T00:00:00+00:00

June is Pride Month in the US and countries around the world. We have automatically activated the new Progress Pride theme on the home page (Click to Activate) if you hadn’t already selected a theme.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: my.galaxy.training https://training.galaxyproject.org/training-material/news/2023/04/20/my-galaxy-training.html 2023-04-20T00:00:00+00:00

The GTN has set up a very simple “redirection” service based on my.home-assistant.io which Helena discovered after reading some Home Assistant documentation and saw a really neat link which led to her own internal home assistant.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: Click-to-run Workflows https://training.galaxyproject.org/training-material/news/2023/04/19/click-to-run.html 2023-04-19T00:00:00+00:00

The GTN has implemented “click to run” workflows! One click, will get you into Galaxy with a workflow imported and ready to run.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: GTN Rdoc https://training.galaxyproject.org/training-material/news/2023/04/19/gtn-rdoc.html 2023-04-19T00:00:00+00:00

The internal functions of the GTN have, in the past, not been very well documented. Now we have started the process of fully documenting the functions and modules available to GTN developers.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: Persistent URLs (PURLs) / Shortlinks https://training.galaxyproject.org/training-material/news/2023/04/19/shortlinks.html 2023-04-19T00:00:00+00:00

The GTN has added persistent URL identifiers for our tutorials, slides, and FAQs. Using the gxy.io service, we have reserved GTN namespace for our persistent URLs. These work similarly to DOIs in that they will always point to a specific training material.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ ❓ Defining a Learning Pathway https://training.galaxyproject.org/training-material/topics/contributing/faqs/learning-pathways.html 2023-04-13T15:51:25+00:00

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ 📰 New Feature: Learning Pathways! https://training.galaxyproject.org/training-material/news/2023/04/13/learning-pathways.html 2023-04-13T00:00:00+00:00

Introducing Learning Pathways in the GTN! Learning pathways are sets of tutorials curated for you by community experts to form a coherent set of lessons around a topic, building up knowledge step by step.

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: Trainer Directory! (Add yourself today!) https://training.galaxyproject.org/training-material/news/2023/03/21/galaxy-trainer-directory.html 2023-03-21T00:00:00+00:00

Numerous other training groups keep “Trainer Directories” as a way to help students meet trainers in their area, especially for hosting workshops for their local community. There have been a handful of attempts at this in the past, both in galaxyproject/galaxy-maps and in a Google Map on the GTN homepage.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Lucille Delisle https://training.galaxyproject.org/training-material/hall-of-fame/lldelisle/ 📰 What are the most used tools in the GTN? https://training.galaxyproject.org/training-material/news/2023/02/08/top-tools.html 2023-02-08T00:00:00+00:00

Did you ever wonder which was the number one most used tool in the GTN? There is a new page of Top Tools where we list all of the top tools in the GTN, and which tutorials use them. We guessed “upload1”, but it seems like not every author annotates that step explicitly in their tutorial, and of course it doesn’t appear in the workflows which we also scan to create this tool listing.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 GTN Celebrates Black History Month https://training.galaxyproject.org/training-material/news/2023/02/02/black-history-month.html 2023-02-02T00:00:00+00:00

February marks Black History Month in the United States. This year we want to celebrate that by introducing a new theme (Click to Activate), and taking a look at one of the most famous Black figures in Science: Henrietta Lacks whose contribution to science went unremarked and unappreciated for decades while white scientists took credit for advancements built on her cell line.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: Prometheus Metrics endpoint https://training.galaxyproject.org/training-material/news/2023/01/24/prometheus.html 2023-01-24T00:00:00+00:00

Prometheus is an increasingly popular monitoring solution whereby sites expose a /metrics endpoint, and then a central Prometheus server can scrape it for data which is then plotted or visualised or alerted upon. We at the GTN are now testing out a prometheus endpoint for our completely static site which we’ll use to expose some maybe useful statistics about the GTN that others can then scrape and display in ways that are useful for them.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New GTN paper: "Galaxy Training: A powerful framework for teaching!" https://training.galaxyproject.org/training-material/news/2023/01/10/gtn-paper.html 2023-01-10T00:00:00+00:00

Our new paper about the Galaxy Training Network has been published this week in Plos Computational Biology: “Galaxy Training: A powerful framework for teaching!”

Improving student learning and out comes should always be a goal of teaching. Here we present several strategies to improve student experiences during courses by focusing on how they approach specific problems, and giving them real world applicable solutions to those problems.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Bazante Sanders https://training.galaxyproject.org/training-material/hall-of-fame/bazante1/ Donny Vrins https://training.galaxyproject.org/training-material/hall-of-fame/dirowa/ Marius van den Beek https://training.galaxyproject.org/training-material/hall-of-fame/mvdbeek/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Peter van Heusden https://training.galaxyproject.org/training-material/hall-of-fame/pvanheus/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ 📚 Design and plan session, course, materials https://training.galaxyproject.org/training-material/topics/contributing/tutorials/design/tutorial.html 2022-09-23T10:02:09+00:00

Teaching and training, core elements of academic life, can be enormously

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Fotis E. Psomopoulos https://training.galaxyproject.org/training-material/hall-of-fame/fpsom/ Allegra Via https://training.galaxyproject.org/training-material/hall-of-fame/allegravia/ Patricia Palagi https://training.galaxyproject.org/training-material/hall-of-fame/ppalagi/ ELIXIR Goblet Train the Trainers https://training.galaxyproject.org/training-material/hall-of-fame/elixir-goblet-ttt/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Cristóbal Gallardo https://training.galaxyproject.org/training-material/hall-of-fame/gallardoalba/ 📚 Principles of learning and how they apply to training and teaching https://training.galaxyproject.org/training-material/topics/contributing/tutorials/learning-principles/tutorial.html 2022-09-23T10:02:09+00:00

In this tutorial we will discuss the principles of learning

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Fotis E. Psomopoulos https://training.galaxyproject.org/training-material/hall-of-fame/fpsom/ Allegra Via https://training.galaxyproject.org/training-material/hall-of-fame/allegravia/ Patricia Palagi https://training.galaxyproject.org/training-material/hall-of-fame/ppalagi/ Cristóbal Gallardo https://training.galaxyproject.org/training-material/hall-of-fame/gallardoalba/ ELIXIR Goblet Train the Trainers https://training.galaxyproject.org/training-material/hall-of-fame/elixir-goblet-ttt/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Cristóbal Gallardo https://training.galaxyproject.org/training-material/hall-of-fame/gallardoalba/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ ❓ Contributing a Jupyter Notebook to the GTN https://training.galaxyproject.org/training-material/topics/contributing/faqs/contributing_a_notebook.html 2022-09-01T12:58:15+00:00

Problem: I have a notebook that I’d like to add to the GTN.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ 📚 GTN Metadata https://training.galaxyproject.org/training-material/topics/contributing/tutorials/schemas/tutorial.html 2022-06-02T12:10:27+00:00

Training Materials

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ 📰 GTN Metadata Schemas https://training.galaxyproject.org/training-material/news/2022/05/20/schema.html 2022-05-20T00:00:00+00:00

Within the GTN we have had schemas for the various metadata we keep for a long time. It helps us automatically check community contributions to ensure they conform to all of the GTN standards, and will work correctly in our environment.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📚 Adding Quizzes to your Tutorial https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-quiz/tutorial.html 2022-05-19T13:47:04+00:00

Interactive quizzes can be used either alone, or with a classroom of students, to check student’s knowledge.

It has been a long discussed feature within the GTN Tutorial Author Community: how can we provide trainees with choice in their tutorials, and how can we as trainers not duplicate large tutorials just to show a slightly different path at one point?

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: Automatic RMarkdown https://training.galaxyproject.org/training-material/news/2022/01/28/rmarkdown.html 2022-01-28T00:00:00+00:00

Further building on the work in the automatic Jupyter Notebook, we’ve now re-written the Jupyter export to be faster, and more importantly added support for R and RMarkdown! Check out an example material. Here we take the content of the tutorial, written like normal GTN markdown, and we automatically convert it to Jupyter Notebooks and now RMarkdown documents! Check out the documentation on how to setup your tutorials to support this.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Support for annotating Funding Agencies https://training.galaxyproject.org/training-material/news/2021/12/14/funding.html 2021-12-14T00:00:00+00:00

The Galaxy Training Network will now support annotating Funding Agencies on training materials. This is part of our ongoing effort to better annotate how people are contributing to the GTN and recognise all of the sources of contribution.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 GTN Smörgåsbord 2: Tapas Edition https://training.galaxyproject.org/training-material/news/2021/12/14/smorgasbord.html 2021-12-14T00:00:00+00:00

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New FAQs: How does the GTN stay FAIR and Collaborative https://training.galaxyproject.org/training-material/news/2021/12/01/FAIR.html 2021-12-01T00:00:00+00:00

The GTN does a lot of work to adhere to the best practices for FAIR training materials as set out in Garcia et al. 2020 and a lot of this work is behind-the-scenes or automatic from the infrastructure we provide, and we wanted to highlight that for educators and organisers who want to use GTN materials. This is one of the ways the GTN works to makes itself a fantastic platform training. Find out how contributing simple markdown tutorials can result in fantastically FAIR training.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: GTN Video Library https://training.galaxyproject.org/training-material/news/2021/11/23/video-library.html 2021-11-23T00:00:00+00:00

After runnning a number of virtual training events this year (e.g. Smörgåsbord, GCC2021), we now have a large collection of training videos around the GTN materials, created by this community.

As part of the work for the Gallantries Grant, we wanted to access some of the data from the GTN in a more accessible, API based way. We are working on building a Video Library based on the wild success of our Smörgåsbord and GCC2021 events and to support that we wanted to start pulling in data from the GTN to save course authors time and effort when designing their asynchronous courses.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Attention Contributors: GTN Performance Enhancements https://training.galaxyproject.org/training-material/news/2021/10/12/speed.html 2021-10-12T00:00:00+00:00

Are you one of our amazing GTN Contributors? Were you ever bothered by how slow it was to build the site locally? This is now fixed completely! We have replaced one of the slowest steps of the GTN’s build process and rewritten it ourselves to be more performant.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 Got a minute? Take our survey about Galaxy for training and have your say! https://training.galaxyproject.org/training-material/news/2021/09/29/survey.html 2021-09-29T00:00:00+00:00

Do you use Galaxy for Training? Have your say! Please take a few minutes to let us know about your training experiences.

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ 📰 New Feature: Automatic Jupyter Notebooks https://training.galaxyproject.org/training-material/news/2021/09/24/jupyter.html 2021-09-24T00:00:00+00:00

As part of the work for the Gallantries Grant, we found ourselves wanting to teach a number of non-Galaxy tutorials on topics such as Python, Bash, SQL, and Git. Writing the tutorials was always a bit awkward as you would spend a lot of time writing code blocks that would be copied and pasted by students into a terminal. We thought we could do better than that, so we decided we would try to convert these to Jupyter Notebooks where the students could read the training materials and simultaneously execute the code cells directly there with the text! This worked fantastically and now we’ve built this feature into the GTN to make it easier to run all of the coding tutorials.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Feature: a feedback page to aggregate and display feedback answers https://training.galaxyproject.org/training-material/news/2021/07/28/feedback.html 2021-07-28T00:00:00+00:00

As you have probably already seen, a feedback form is embedded on the bottom of each tutorial.

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ 📰 Accessibility Improvements https://training.galaxyproject.org/training-material/news/2021/07/27/a11y.html 2021-07-27T00:00:00+00:00

One of our community members suggested on twitter that we support alternative formats for accessing our JavaScript based slides, as this can be difficult for users using screen readers. We’ve now added support for “plain text slides”, where we render the slide decks as a single long document.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ 📰 New Tutorial: GitPod for contributing to the GTN https://training.galaxyproject.org/training-material/news/2021/06/25/gitpod.html 2021-06-25T00:00:00+00:00

Want to contribute to the GTN without installing anything on your own computer? GitPod provides an online workspace for editing the GTN tutorials, and showing a live preview of the GTN website with your changes. This tutorial shows you how to set up GitPod, how to use it to get a live preview of the GTN website, and how to save any changes you make back to your GitHub fork. This makes it easier than ever to contribute to the GTN!

Retrieve climate data from Copernicus

📚 Updating diffs in admin training https://training.galaxyproject.org/training-material/topics/contributing/tutorials/admin-knitting/tutorial.html 2021-06-07T08:12:11+00:00

Updating Diffs

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Nate Coraor https://training.galaxyproject.org/training-material/hall-of-fame/natefoo/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Lucille Delisle https://training.galaxyproject.org/training-material/hall-of-fame/lldelisle/ Marius van den Beek https://training.galaxyproject.org/training-material/hall-of-fame/mvdbeek/ Simon Gladman https://training.galaxyproject.org/training-material/hall-of-fame/slugger70/ 📰 Oh no, it changed! Quick, to the archive menu. https://training.galaxyproject.org/training-material/news/2021/06/01/archive-menu.html 2021-06-01T00:00:00+00:00

Did you ever start teaching a GTN tutorial, only to realise something changed recently? Oh no! A while ago the GTN created an Archive to address just this concern.

Thanks to the great tutorial developed by first time contributor

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Erik Schill https://training.galaxyproject.org/training-material/hall-of-fame/rikeshi/ Simon Bray https://training.galaxyproject.org/training-material/hall-of-fame/simonbray/ 📰 New Feature: Video Player https://training.galaxyproject.org/training-material/news/2021/04/06/new-video-player.html 2021-04-06T00:00:00+00:00

One of our contributors (

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ ❓ How can I create a tutorial skeleton from a Galaxy workflow? https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-content/faqs/tutorial_from_workflows.html 2021-03-24T13:50:23+00:00

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ ❓ Which icons are available to use in my tutorial? https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-content/faqs/icons_list.html 2021-03-24T13:50:23+00:00

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ 📰 New Feature: FAQs https://training.galaxyproject.org/training-material/news/2021/03/24/faqs.html 2021-03-24T00:00:00+00:00

Snippets have received an major overhaul! Snippets/FAQs are small reusable bits of training, often answering a single question. In addition to the general Galaxy snippets, we now also support topic-level and tutorial-level FAQs. This will allow contributors to add common questions and answers to their tutorials, which not only can be included in the tutorial text itself, but are also used to autogenerate an FAQ page for the tutorial or topic listing all common questions (and answers).This will be useful both to participants following tutorials via self-study, and also to instructors preparing for a training event.

Every 3 months we organise one day dedicated to the GTN community! Thursday, May 20th is the next GTN CoFest. We will be working on the training materials, have discussions with the global Galaxy traning community. Do you teach with Galaxy? Want to learn how to add your tutorial to the GTN? New to the community and just want to learn more? Everybody is welcome!

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Jennifer Hillman-Jackson https://training.galaxyproject.org/training-material/hall-of-fame/jennaj/ Delphine Lariviere https://training.galaxyproject.org/training-material/hall-of-fame/delphine-l/ Anna Syme https://training.galaxyproject.org/training-material/hall-of-fame/annasyme/ Maria Doyle https://training.galaxyproject.org/training-material/hall-of-fame/mblue9/ 📰 New Feature: Automatic Slides-to-video conversion https://training.galaxyproject.org/training-material/news/2021/03/16/slides_to_videos.html 2021-03-16T00:00:00+00:00

This past year has been a struggle for all of us, but one task has become apparent as one of the most time consuming portions of course preparation during a pandemic: Video Production.

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Delphine Lariviere https://training.galaxyproject.org/training-material/hall-of-fame/delphine-l/ 🎥 Recording of Preview the GTN website as you edit your training material https://training.galaxyproject.org/training-material/topics/contributing/tutorials/rendering_gtn/recordings/#tutorial-recording-15-february-2021 2021-02-15T00:00:00+00:00

A 20M long recording is now available.

Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ 🎥 Recording of Creating Slides https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-slides/recordings/#tutorial-recording-15-february-2021 2021-02-15T00:00:00+00:00

A 5M long recording is now available.

Automated Text-to-Speech https://training.galaxyproject.org/training-material/hall-of-fame/awspolly/ 🎥 Recording of Creating a new tutorial https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial/recordings/#tutorial-recording-15-february-2021 2021-02-15T00:00:00+00:00

A 42M long recording is now available.

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ 📚 Adding auto-generated video to your slides https://training.galaxyproject.org/training-material/topics/contributing/tutorials/slides-with-video/tutorial.html 2020-10-20T11:32:49+00:00

Video Lectures

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Martin Čech https://training.galaxyproject.org/training-material/hall-of-fame/martenson/ 🛠️ MakeAFakeInput https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial/workflows/Galaxy-Workflow-MakeAFakeInput.html 2019-08-02T14:24:47+00:00

Creating a new tutorial

📚 Creating a new tutorial https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial/tutorial.html 2018-06-20T10:15:12+00:00

Galaxy is a great solution to train bioinformatics concepts:

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Lucille Delisle https://training.galaxyproject.org/training-material/hall-of-fame/lldelisle/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Yvan Le Bras https://training.galaxyproject.org/training-material/hall-of-fame/yvanlebras/ Gildas Le Corguillé https://training.galaxyproject.org/training-material/hall-of-fame/lecorguille/ Simon Bray https://training.galaxyproject.org/training-material/hall-of-fame/simonbray/ Wolfgang Maier https://training.galaxyproject.org/training-material/hall-of-fame/wm75/ Simon Gladman https://training.galaxyproject.org/training-material/hall-of-fame/slugger70/ Anthony Bretaudeau https://training.galaxyproject.org/training-material/hall-of-fame/abretaud/ Niall Beard https://training.galaxyproject.org/training-material/hall-of-fame/njall/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ Daniela Schneider https://training.galaxyproject.org/training-material/hall-of-fame/Sch-Da/ 🖼️ Creating Slides https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-slides/slides.html 2018-06-13T06:55:39+00:00

Slides

Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Cristóbal Gallardo https://training.galaxyproject.org/training-material/hall-of-fame/gallardoalba/ Martin Čech https://training.galaxyproject.org/training-material/hall-of-fame/martenson/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Niall Beard https://training.galaxyproject.org/training-material/hall-of-fame/njall/ 📚 Contributing with GitHub via its interface https://training.galaxyproject.org/training-material/topics/contributing/tutorials/github-interface-contribution/tutorial.html 2018-06-12T14:10:14+00:00

All the training material which you find on https://training.galaxyproject.org/training-material/ is stored on a GitHub repository (https://github.com/galaxyproject/training-material), a code hosting platform for version control and collaboration. GitHub interface is quite intuitive and simplifies the contributions from anyone.

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Niall Beard https://training.galaxyproject.org/training-material/hall-of-fame/njall/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ 📚 Contributing to the Galaxy Training Network with GitHub https://training.galaxyproject.org/training-material/topics/contributing/tutorials/github-contribution/tutorial.html 2018-06-12T13:21:35+00:00

Most of the GTN content is written in GitHub Flavored Markdown with some metadata (or variables) found in YAML files. Everything is stored on a GitHub repository: https://github.com/galaxyproject/training-material.

Cyril Monjeaud https://training.galaxyproject.org/training-material/hall-of-fame/cmonjeau/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ Phil Reed https://training.galaxyproject.org/training-material/hall-of-fame/PhilReedData/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Niall Beard https://training.galaxyproject.org/training-material/hall-of-fame/njall/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ 📚 Generating PDF artefacts of the website https://training.galaxyproject.org/training-material/topics/contributing/tutorials/generating-pdf/tutorial.html 2018-06-04T17:05:29+00:00

The website with the training material can be run locally. Sometimes, it is also interesting to freeze the tutorials or to get PDFs of the tutorials.

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Niall Beard https://training.galaxyproject.org/training-material/hall-of-fame/njall/ 📚 Including a new topic https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-topic/tutorial.html 2018-06-04T17:05:29+00:00

Each training material is related to a topic. All training materials (slides, tutorials, …) related to a topic are found in a dedicated directory (e.g. transcriptomics directory contains the material related to exome sequencing analysis).

Galaxy is a great solution to train the bioinformatics concepts:

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ William Durand https://training.galaxyproject.org/training-material/hall-of-fame/willdurand/ Niall Beard https://training.galaxyproject.org/training-material/hall-of-fame/njall/ Martin Čech https://training.galaxyproject.org/training-material/hall-of-fame/martenson/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Armin Dadras https://training.galaxyproject.org/training-material/hall-of-fame/dadrasarmin/ 📚 Creating content in Markdown https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-content/tutorial.html 2017-06-25T22:36:01+00:00

Once we have set up the infrastructure, we are ready to write the tutorial.

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Linelle Abueg https://training.galaxyproject.org/training-material/hall-of-fame/abueg/ Lucille Delisle https://training.galaxyproject.org/training-material/hall-of-fame/lldelisle/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Marisa Loach https://training.galaxyproject.org/training-material/hall-of-fame/MarisaJL/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/ Anthony Bretaudeau https://training.galaxyproject.org/training-material/hall-of-fame/abretaud/ Mehmet Tekman https://training.galaxyproject.org/training-material/hall-of-fame/mtekman/ Pablo Moreno https://training.galaxyproject.org/training-material/hall-of-fame/pcm32/ Julia Jakiela https://training.galaxyproject.org/training-material/hall-of-fame/wee-snufkin/ Pavankumar Videm https://training.galaxyproject.org/training-material/hall-of-fame/pavanvidem/ Melissa Burke https://training.galaxyproject.org/training-material/hall-of-fame/burkemlou/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Simon Bray https://training.galaxyproject.org/training-material/hall-of-fame/simonbray/ Simon Gladman https://training.galaxyproject.org/training-material/hall-of-fame/slugger70/ Cristóbal Gallardo https://training.galaxyproject.org/training-material/hall-of-fame/gallardoalba/ Martin Čech https://training.galaxyproject.org/training-material/hall-of-fame/martenson/ William Durand https://training.galaxyproject.org/training-material/hall-of-fame/willdurand/ Andrea Bagnacani https://training.galaxyproject.org/training-material/hall-of-fame/bagnacan/ Niall Beard https://training.galaxyproject.org/training-material/hall-of-fame/njall/ Armin Dadras https://training.galaxyproject.org/training-material/hall-of-fame/dadrasarmin/ 📚 Tools, Data, and Workflows for tutorials https://training.galaxyproject.org/training-material/topics/contributing/tutorials/create-new-tutorial-technical/tutorial.html 2017-06-25T22:36:01+00:00

Building a Galaxy instance specifically for your training

Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ Marie Josse https://training.galaxyproject.org/training-material/hall-of-fame/Marie59/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Bert Droesbeke https://training.galaxyproject.org/training-material/hall-of-fame/bedroesb/ Simon Bray https://training.galaxyproject.org/training-material/hall-of-fame/simonbray/ William Durand https://training.galaxyproject.org/training-material/hall-of-fame/willdurand/ Niall Beard https://training.galaxyproject.org/training-material/hall-of-fame/njall/ Martin Čech https://training.galaxyproject.org/training-material/hall-of-fame/martenson/ Armin Dadras https://training.galaxyproject.org/training-material/hall-of-fame/dadrasarmin/ 🖼️ Overview of the Galaxy Training Material https://training.galaxyproject.org/training-material/topics/contributing/tutorials/introduction/slides.html 2017-06-25T22:36:01+00:00

Welcome to the Galaxy Community

Steps

Cyril Monjeaud https://training.galaxyproject.org/training-material/hall-of-fame/cmonjeau/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Nicola Soranzo https://training.galaxyproject.org/training-material/hall-of-fame/nsoranzo/ Saskia Hiltemann https://training.galaxyproject.org/training-material/hall-of-fame/shiltemann/ Helena Rasche https://training.galaxyproject.org/training-material/hall-of-fame/hexylena/ Cristóbal Gallardo https://training.galaxyproject.org/training-material/hall-of-fame/gallardoalba/ Bérénice Batut https://training.galaxyproject.org/training-material/hall-of-fame/bebatut/ Björn Grüning https://training.galaxyproject.org/training-material/hall-of-fame/bgruening/ William Durand https://training.galaxyproject.org/training-material/hall-of-fame/willdurand/ Niall Beard https://training.galaxyproject.org/training-material/hall-of-fame/njall/ Phil Reed https://training.galaxyproject.org/training-material/hall-of-fame/PhilReedData/ Wendi Bacon https://training.galaxyproject.org/training-material/hall-of-fame/nomadscientist/