Saskia Hiltemann

Researcher at Erasmus Medical Center

Affiliations

University of Freiburg avatar UFRDataPLANT (NFDI4Plants) avatar DataPLANTELIXIR Europe avatar ELIXIR Europe

Former Affiliations

Common Infrastructure for National Cohorts in Europe, Canada, and Africa avatar CINECAGallantries: Bridging Training Communities in Life Science, Environment and Health avatar GallantriesErasmus Medical Center avatar ErasmusMC

Contributions

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.

Editorial Roles

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.

Tutorials

Slides

FAQs

Video Recordings

Events



GitHub Activity

Issues Reported

379 Merged Pull Requests

See all of the Pull Requests and Commits by Saskia Hiltemann.

Reviewed 1352 PRs

We love our community reviewing each other's work!

News

Wordcloud of emoji with them in different sizes based on frequency
Report on the GTN Smörgåsbord event
Saskia Hiltemann avatar Helena Rasche avatar
17 March 2021
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.
event pandemic remote-teaching teaching
GTN logo with a multi-coloured star and the words Galaxy Training Network
Galaxy Community Conference 2021
Saskia Hiltemann avatar
18 March 2021
This is an external post, please follow the link to read it.
event
CoFest logo with two generic people shapes conversing next to the GTN logo and text 'gtn cofest'
Next GTN CoFest May 20, 2021
Saskia Hiltemann avatar Helena Rasche avatar Bérénice Batut avatar Jennifer Hillman-Jackson avatar Delphine Lariviere avatar Anna Syme avatar Maria Doyle avatar
18 March 2021
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!
cofest contributing
GTN logo with a multi-coloured star and the words Galaxy Training Network
New Feature: FAQs
Saskia Hiltemann avatar Helena Rasche avatar Bérénice Batut avatar
24 March 2021
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.
gtn infrastructure contributors instructors new feature contributing
Assembly visualisation from the Bandage tool
New Tutorials: Genome assembly of a MRSA genome
Bazante Sanders avatar Miaomiao Zhou avatar Helena Rasche avatar Saskia Hiltemann avatar
24 March 2021
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.
new tutorial assembly mrsa amr nanopore illumina
Hello in many languages
¿Hablas español?: The first curated tutorial in Spanish!
Wendi Bacon avatar Beatriz Serrano-Solano avatar Patricia Carvajal López avatar Alejandra Escobar-Zepeda avatar Saskia Hiltemann avatar Helena Rasche avatar
20 May 2021
¡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.
new tutorial español introduction
GTN logo with a multi-coloured star and the words Galaxy Training Network
Oh no, it changed! Quick, to the archive menu.
Helena Rasche avatar Saskia Hiltemann avatar
1 June 2021
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.
new feature contributing
Screenshot of the GitPod workspace. A file browser pane on the left, terminal on the bottom, text editor in the middle, and preview of the rendered GTN website on the right.
New Tutorial: GitPod for contributing to the GTN
Saskia Hiltemann avatar Helena Rasche avatar
25 June 2021
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!
new tutorial contributing
GTN logo with a multi-coloured star and the words Galaxy Training Network
New Topic: Data Science Survival Kit
Saskia Hiltemann avatar Helena Rasche avatar Bérénice Batut avatar Anthony Bretaudeau avatar Yvan Le Bras avatar Fotis E. Psomopoulos avatar The Carpentries avatar
12 October 2021
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:
gtn infrastructure new topic data-science
Screenshot of the GTN Video Library Home page
New Feature: GTN Video Library
Saskia Hiltemann avatar Helena Rasche avatar
23 November 2021
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.
gtn infrastructure new feature contributing
Screenshot of the GTN Video Library Home page
New Feature: GTN Video Library
Saskia Hiltemann avatar Helena Rasche avatar
23 November 2021
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.
gtn infrastructure new feature contributing
Access the workflow report from the invocations menu
New Tutorial: Workflow Reports
Saskia Hiltemann avatar
2 June 2022
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!
new tutorial Galaxy Tips & Tricks galaxy-interface
screenshot from the data manipulation tutorial
New Tutorial: Data Manipulation
Saskia Hiltemann avatar
11 September 2022
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.
new tutorial introduction
Content of material available on the GTN and feedback from learners. (A) Evolution of number of topics, tutorials, and contributors over the months between 2017 and 2022. (B) Number and type of tutorials per topics available on the GTN on April 2022. The latest statistics are publicly available from https://training.galaxyproject.org/stats. (C) Type of supporting materials for tutorials per topics available on the GTN on April 2022. (D) Score of the embedded feedback in the tutorials per topics. Three questions are asked in the form: 'How much did you like this tutorial?' (from 1 (bad) to 5 (great)), 'What did you like?', 'What could be improved?'. The latest feedback results are publicly available from https://training.galaxyproject.org/feedback.
New GTN paper: "Galaxy Training: A powerful framework for teaching!"
Bérénice Batut avatar Saskia Hiltemann avatar Helena Rasche avatar
10 January 2023
Our new paper about the Galaxy Training Network has been published this week in Plos Computational Biology: “Galaxy Training: A powerful framework for teaching!”
paper contributing
a graphic depicting a winding path from a start symbol to a trophy, with tutorials along the way
New Feature: Learning Pathways!
Saskia Hiltemann avatar Helena Rasche avatar
13 April 2023
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.
new feature contributing
A screenshot of a radar plot visibly from fair-checker's site showing a perfect score.
Perfectly FAIR Training!
Helena Rasche avatar
13 May 2024
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.
gtn infrastructure fair contributing
A screenshot of a GTN event page showing the program tab. It looks very similar to GTN topic pages.
Introducing GTN Event Pages
Saskia Hiltemann avatar
22 May 2024
Are you organizing a training event using GTN materials? You can now add your event directly to the GTN!
gtn infrastructure new feature events contributing community
A screenshot of a GTN event page showing the program tab. It looks very similar to GTN topic pages.
Introducing GTN Event Pages
Saskia Hiltemann avatar
22 May 2024
Are you organizing a training event using GTN materials? You can now add your event directly to the GTN!
gtn infrastructure new feature events contributing community
400 tutorials
Celebrating the Milestone: 400 Tutorials on the Galaxy Training Network!
Bérénice Batut avatar Helena Rasche avatar Saskia Hiltemann avatar
6 June 2024
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.
gtn contributing community
Screenshot of the GTN Video Library showing a tutorial recording with a large youtube player and extensive metadata about who created the video (Natalie Kucher) and when, how long, etc.
GTN Video Library 2.0: 107 hours of learning across 154 videos
Saskia Hiltemann avatar Helena Rasche avatar
14 June 2024
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!
gtn contributing teaching community
Screenshot of the GTN Video Library showing a tutorial recording with a large youtube player and extensive metadata about who created the video (Natalie Kucher) and when, how long, etc.
GTN Video Library 2.0: 107 hours of learning across 154 videos
Saskia Hiltemann avatar Helena Rasche avatar
14 June 2024
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!
gtn contributing teaching community
banner image for the mTB training event showing the name of the course over a background of a touchscreen showing data
4th Mycobacterium tuberculosis complex NGS made easy
Daniela Brites avatar Christoph Stritt avatar Andrea Cabibbe avatar Arash Ghodousi avatar Peter van Heusden avatar Liliana Rutaihwa avatar Galo A. Goig avatar
8 July 2024
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.
NGS Tuberculosis Drug-resistance transmission evolution one-health microbiome
the title slide of the presentation titled Updates from the GTN , Galaxy Community Conference 2024 Brno, Saskia and Helena. The background consists of paper pieced flowers and a butterfly. a CC-BY-SA logo is in the top right corner.
So many new features! GTN 2023-2024 Updates
Saskia Hiltemann avatar Helena Rasche avatar
9 July 2024
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.
gcc gtn infrastructure contributing
the title slide of the presentation titled Updates from the GTN , Galaxy Community Conference 2024 Brno, Saskia and Helena. The background consists of paper pieced flowers and a butterfly. a CC-BY-SA logo is in the top right corner.
So many new features! GTN 2023-2024 Updates
Saskia Hiltemann avatar Helena Rasche avatar
9 July 2024
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.
gcc gtn infrastructure contributing
A screenshot of the GTN Google Form for news contributions. The form is titled 'GTN News' and has fields for 'Title', with a screenshot of a galaxy single cell news post as the header image.
Simplifying GTN contribution with Google Forms
Helena Rasche avatar Saskia Hiltemann avatar
17 July 2024
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.
gtn infrastructure new feature automation contributing
A screenshot of the GTN Google Form for news contributions. The form is titled 'GTN News' and has fields for 'Title', with a screenshot of a galaxy single cell news post as the header image.
Simplifying GTN contribution with Google Forms
Helena Rasche avatar Saskia Hiltemann avatar
17 July 2024
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.
gtn infrastructure new feature automation contributing
GTN logo with a multi-coloured star and the words Galaxy Training Network
The GTN joined the BioNT Community Event & CarpentryConnect - Heidelberg 2024
Teresa Müller avatar Saskia Hiltemann avatar
18 December 2024
The Galaxy Training Network joined the BioNT Community Event & CarpentryConnect - Heidelberg 2024
gtn event
Three happy looking people on a beach with a ferris wheel in the background. Everyone is wearing glasses and clearly a nerd. The individuals are Helena, Saskia & Wendi
An Ode to Helena - from the 🥓Bacon Brigade
Wendi Bacon avatar Marisa Loach avatar Morgan Howells avatar Julia Jakiela avatar Camila Goclowski avatar
7 March 2025
@gtn:hexylena, as a key member of the phenomenally creative and passionate Galaxy Training Network team alongside @gtn:shiltemann and @gtn:bebatut, pioneered the concept of Training Infrastructure. In a world dominated by clunky virtual learning environments and expensive software, she built an open-source system that could seamlessly support individual users, trainers, and contributors across diverse disciplines and expertise levels.
gtn
WorkflowHub logo.
GTN is now integrated with WorkflowHub
Johan Gustafsson avatar Helena Rasche avatar Finn Bacall avatar Bert Droesbeke avatar Eli Chadwick avatar Armin Dadras avatar Saskia Hiltemann avatar Björn Grüning avatar Frederik Coppens avatar Carole Goble avatar
2 September 2025
Thanks to a collaborative effort between the teams at Galaxy Training Network (GTN), WorkflowHub, and Australian BioCommons, GTN workflows are now registered automatically with WorkflowHub. The existing set of workflows can be viewed here: GTN on WorkflowHub. For every new tutorial that is added to the GTN, any workflows that it contains will now also be pushed to WorkflowHub.
gtn workflowhub workflows fair
Saskia Hiltemann avatar

External Links

Training Philosophy
shiltemann
saskia.hiltemann@gmail.com
shiltemann:matrix.org
https://mstdn.science/@shiltemann
shiltemann.bsky.social
shiltemann
0000-0003-3803-468X
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Favourite Topics

Favourite Formats

Stats for materials contributed to by Saskia Hiltemann