Researcher at Erasmus Medical Center
The following list includes only slides and tutorials where the individual or organisation has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.
This contributor has taken on additional responsibilities as an editor for the following topics. They are responsible for ensuring that the content is up to date, accurate, and follows GTN best practices.
See all of the github Pull Requests and github Commits by Saskia Hiltemann.
more codespaces config
[CodeSpaces] free up some disk space in preview command
GTN in CodeSpaces tutorial
[Gitpod] Add tip box about configuring prebuilds
Reorder tutorrials in Contributing topic
We love our community reviewing each other's work!
[Google Form] New Event!
add wip pdf2slides script
Update tutorial.md_Assembly
Add an FAQ to explain how to prepare a tutorial to support tutorial mode
Add new FAIR-by-design Microlearning tutorial from Skills4EOSC
| Author(s) |
 
Saskia Hiltemann
Helena Rasche
|
The GTN instructors community has just run the largest-ever Galaxy training event: “the GTN Smörgåsbord: A Global Galaxy Course”, co-organized with the Gallantries and the CINECA project and the Galaxy Training Network.
Full Story
| Author(s) |
Saskia Hiltemann
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This is an external post, please follow the link to read it.
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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!
Full Story
| Author(s) |
Saskia Hiltemann
Helena Rasche
Bérénice Batut
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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.
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Two new assembly tutorials have been added to the GTN! These tutorials walk you through the process of assembling MRSA strains from real-world datasets. MRSA stands for “Methicillin- resistant Staphylococcus aureus, it is resistance to several antibiotics and is a common source of hospital-acquired infections and outbreaks. In this tutorial you will assess the quality of your data, perform an assembly and assess its quality, analyze your data for the presence of antimicrobial resistance (AMR) genes, and annotate the genome using Prokka and JBrowse.
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¡El primer tutorial en español ya está disponible! Galaxy siempre ha tenido tutoriales traducidos automáticamente mediante Google-Translate, ahora nos estamos embarcando en un nuevo proyecto para estudiar la experiencia de aprendizaje con tutoriales en bioinformática traducidos por humanos. Nuestro objetivo es crear un paquete de tutoriales para el análisis de datos single-cell (célula única) en primera instancia, con el fin de estudiar su uso y utilidad en un taller para hablantes nativos de español. Agradecemos enormemente a las nuevas participantes @gtn:pclo y @gtn:ales-ibt (EMBL-EBI) así como a las miembros existentes de GTN @gtn:beatrizserrano (University of Freiburg), @gtn:shiltemann & @gtn:hexylena (Erasmus-MC), por su arduo trabajo en este proyecto de traducción y mantenimiento y, por supuesto, a @gtn:nomadscientist (The Open University/EBI) como líder de proyecto.
Full Story
| Author(s) |
Helena Rasche
Saskia Hiltemann
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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. On every tag, we’d build a copy of the website which we would place online and never touch again. This way we’d have permanent online copies so that if someone needed to go back to an older version of the GTN, they could.
Full Story
| Author(s) |
Saskia Hiltemann
Helena Rasche
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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!
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As part of our work under the Gallantries Grant we are establishing a new topic within the GTN specifically focused on Data Science skills. This topic will include tutorials covering things such as:
Full Story
| Author(s) |
Saskia Hiltemann
Helena Rasche
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| Infrastructure |
Saskia Hiltemann
Helena Rasche |
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.
Full Story
| Author(s) |
Saskia Hiltemann
Helena Rasche
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| Infrastructure |
Saskia Hiltemann
Helena Rasche |
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.
Full Story
| Author(s) |
Saskia Hiltemann
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Workflow reports are a great Galaxy feature that enable you to define summary reports for any workflow to display the most important results in a single view. This tutorial will guide you through the basics of viewing, customizing, and sharing such workflow reports!
Full Story
| Author(s) |
Saskia Hiltemann
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Many analyses in Galaxy require small data manipulations in between tools as a sort of “glue” between analysis steps. For example, you may need to change the file format, re-order columns in a table, replace certain values, or perform some filtering operation, before you can proceed to the next step of your analysis. Galaxy offers a wide range of tools that can perform such generic data manipulation tasks, and mastering these types of operations in Galaxy can help you streamline your analysis and get the most out of Galaxy.
Full Story
| Author(s) |
Bérénice Batut
Saskia Hiltemann
Helena Rasche
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Our new paper about the Galaxy Training Network has been published this week in Plos Computational Biology: “Galaxy Training: A powerful framework for teaching!”
Full Story
| Author(s) |
Saskia Hiltemann
Helena Rasche
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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.
Full Story
| Author(s) |
Helena Rasche
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| Infrastructure |
Saskia Hiltemann
Helena Rasche
Bérénice Batut |
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.
Full Story
| Author(s) |
Saskia Hiltemann
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| Infrastructure |
Saskia Hiltemann
Helena Rasche |
Are you organizing a training event using GTN materials? You can now add your event directly to the GTN!
Full Story
| Author(s) |
Saskia Hiltemann
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| Infrastructure |
Saskia Hiltemann
Helena Rasche |
Are you organizing a training event using GTN materials? You can now add your event directly to the GTN!
Full Story
| Author(s) |
Bérénice Batut
Helena Rasche
Saskia Hiltemann
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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.
Full Story
| Author(s) |
Saskia Hiltemann
Helena Rasche
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| Infrastructure |
Saskia Hiltemann
Helena Rasche |
Many GTN tutorials already have recordings. These recordings were made by members of the community for a variety of (online) training events. Up until now, this video library were part of the Gallantries Project. We have now integrated this video library directly into the GTN, and made it even easier to add video recordings to GTN tutorials or slide decks! Just use a Google Form to submit your video recordings!
Full Story
| Author(s) |
Saskia Hiltemann
Helena Rasche
|
| Infrastructure |
Saskia Hiltemann
Helena Rasche |
Many GTN tutorials already have recordings. These recordings were made by members of the community for a variety of (online) training events. Up until now, this video library were part of the Gallantries Project. We have now integrated this video library directly into the GTN, and made it even easier to add video recordings to GTN tutorials or slide decks! Just use a Google Form to submit your video recordings!
Full Story
| Author(s) |
Daniela Brites
Christoph Stritt
Andrea Cabibbe
Arash Ghodousi
Peter van Heusden
Liliana Rutaihwa
Galo A. Goig
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| Tester(s) |
Saskia Hiltemann |
| Infrastructure |
Björn Grüning |
Tuberculosis (TB) is a big killer in many countries of the world, particularly in those with low and middle income. Next-generation sequencing has been key in improving our understanding of drug resistance acquisition and of transmission of Mycobacterium tuberculosis. Yet, the need for expertise guiding NGS implementation in laboratories and the lack of bioinformatic expertise, are main obstacles hindering the implementation of NGS into TB programs.
Full Story
| Author(s) |
Saskia Hiltemann
Helena Rasche
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| Infrastructure |
Saskia Hiltemann
Helena Rasche
Bérénice Batut |
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.
Full Story
| Author(s) |
Saskia Hiltemann
Helena Rasche
|
| Infrastructure |
Saskia Hiltemann
Helena Rasche
Bérénice Batut |
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.
Full Story
| Author(s) |
Helena Rasche
Saskia Hiltemann
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| Infrastructure |
Saskia Hiltemann
Helena Rasche |
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.
Full Story
| Author(s) |
Helena Rasche
Saskia Hiltemann
|
| Infrastructure |
Saskia Hiltemann
Helena Rasche |
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.
Full Story
Favourite Topics
Favourite Formats
UFR
DataPLANT
ELIXIR Europe
CINECA
Gallantries
ErasmusMC
Jennifer Hillman-Jackson
Delphine Lariviere
Anna Syme
Maria Doyle
Bazante Sanders
Miaomiao Zhou
Wendi Bacon
Beatriz Serrano-Solano
Patricia Carvajal López
Alejandra Escobar-Zepeda
Anthony Bretaudeau
Yvan Le Bras
Fotis E. Psomopoulos
The Carpentries