As part of the Gallantries Project we developed a small “Course Builder” which can help you build a schedule of pre-existing videos from the GTN Video library to use with your courses.

Agenda

In this tutorial, we will see:

1. Try the Course Builder

Try the Course Builder

You can try the course builder online. It works as follows:

1. The “Welcome!” Tab

   Pick some modules from the left hand menu by clicking on them. They will turn blue when added to your event.

   Hands-on: Add some modules

   Add the following modules:

   Basics:

   1. Setup
   2. Code of Conduct
   3. Feedback Sessions:
   4. Quality Control
   5. Mapping Galaxy Intro:
   6. A Very Short Introduction to Galaxy Transcriptomics:
   7. Introduction to Transcriptomics
   8. Reference based RNA-Seq data analysis

2. The “Session” Tab

   This tab allows you to organise your modules into sessions. Do you want to split up the materials by day? Or morning/afternoon? Or by week if you’re running a longer course?

   Hands-on: Create Sessions and Organise Content

   1. Create a new section

      name: Galaxy Intro description: “Morning Session”

   2. Create a new section

      name: RNA-Seq description: “Afternoon Session”

   3. Add Very Short Introduction to Galaxy to the first session by dragging and dropping it.
   4. Add RNA Seq modules to the second session

3. The “Configure Event” Tab

   This tab lets you add metadata to the event, it builds on the data in the video-library so you may not find your name in the list.

   Hands-on: Update event metadata

   1. Change the event title and description
   2. Change the event dates
   3. Select some trainers
   4. Select some contacts (can be randomly, or yourself if you are present)
   5. Select some affiliated institutions

4. The “Export” Tab

   If you’ve made it this far you’re ready to contribute this file to the Video Library which will provide a workshop webpage for you!

   Hands-on: Create the event webpage

   1. Fork the video-library repo
   2. Add your file to docs/events/<your-event-identifier>/index.md
   3. Create a pull request
      • If any instructors/institutes/organisers were missing from your selections, then write the missing information in the Pull Request and the maintainers will help you add it in the correct place.

Key points

• Can make hosting Gallantries/Smörgåsbord style courses easier

Frequently Asked Questions

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Citing this Tutorial

1. Helena Rasche, Course Builder (Galaxy Training Materials). https://training.galaxyproject.org/training-material/topics/teaching/tutorials/gallantries-coursebuilder/tutorial.html Online; accessed TODAY
2. Hiltemann, Saskia, Rasche, Helena et al., 2023 Galaxy Training: A Powerful Framework for Teaching! PLOS Computational Biology 10.1371/journal.pcbi.1010752
3. Batut et al., 2018 Community-Driven Data Analysis Training for Biology Cell Systems 10.1016/j.cels.2018.05.012

BibTeX

@misc{teaching-gallantries-coursebuilder,
author = "Helena Rasche",
	title = "Course Builder (Galaxy Training Materials)",
	year = "",
	month = "",
	day = ""
	url = "\url{https://training.galaxyproject.org/training-material/topics/teaching/tutorials/gallantries-coursebuilder/tutorial.html}",
	note = "[Online; accessed TODAY]"
}
@article{Hiltemann_2023,
	doi = {10.1371/journal.pcbi.1010752},
	url = {https://doi.org/10.1371%2Fjournal.pcbi.1010752},
	year = 2023,
	month = {jan},
	publisher = {Public Library of Science ({PLoS})},
	volume = {19},
	number = {1},
	pages = {e1010752},
	author = {Saskia Hiltemann and Helena Rasche and Simon Gladman and Hans-Rudolf Hotz and Delphine Larivi{\`{e}}re and Daniel Blankenberg and Pratik D. Jagtap and Thomas Wollmann and Anthony Bretaudeau and Nadia Gou{\'{e}} and Timothy J. Griffin and Coline Royaux and Yvan Le Bras and Subina Mehta and Anna Syme and Frederik Coppens and Bert Droesbeke and Nicola Soranzo and Wendi Bacon and Fotis Psomopoulos and Crist{\'{o}}bal Gallardo-Alba and John Davis and Melanie Christine Föll and Matthias Fahrner and Maria A. Doyle and Beatriz Serrano-Solano and Anne Claire Fouilloux and Peter van Heusden and Wolfgang Maier and Dave Clements and Florian Heyl and Björn Grüning and B{\'{e}}r{\'{e}}nice Batut and},
	editor = {Francis Ouellette},
	title = {Galaxy Training: A powerful framework for teaching!},
	journal = {PLoS Comput Biol} Computational Biology}
}

                   

Funding

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

See Funder Profile

Galaxy Administrators: Install the missing tools

You can use Ephemeris's shed-tools install command to install the tools used in this tutorial.

shed-tools install [-g GALAXY] [-a API_KEY] -t <(curl https://training.galaxyproject.org/training-material/api/topics/teaching/tutorials/gallantries-coursebuilder/tutorial.json | jq .admin_install_yaml -r)

Alternatively you can copy and paste the following YAML

---
install_tool_dependencies: true
install_repository_dependencies: true
install_resolver_dependencies: true
tools: []

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