Test Tutorial for Language: en

Lorem ipsum dolor sit amet, consectetur adipiscing elit. Vestibulum sit amet velit nibh. Nullam porttitor urna at mi vulputate convallis. Cras mattis tempor interdum.

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Hands On: Lorem Ipsum

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Tip: Lorem Ipsum

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Comment: Lorem Ipsum

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Question: Lorem Ipsum

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Solution: Lorem Ipsum

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Details: Lorem Ipsum

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Warning: Lorem Ipsum

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Code In: Lorem Ipsum

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Code Out: Lorem Ipsum

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Test snippets of different box types

Tip: Creating a new history

To create a new history simply click the new-history icon at the top of the history panel:

Hands On: Importing and Launching a Dockstore Workflow

1. Go to galaxy-workflows-activity Workflows → Import in your Galaxy
2. Switch tabs to TRS ID
3. Ensure the “TRS server” is set to “Dockstore”
4. Provide your “TRS ID” (copied from your workflow’s Dockstore page)
5. Select the workflow version you want to import

Comment: Nanopore sequencing

Nanopore sequencing has several properties that make it well-suited for our purposes

1. Long-read sequencing technology offers simplified and less ambiguous genome assembly
2. Long-read sequencing gives the ability to span repetitive genomic regions
3. Long-read sequencing makes it possible to identify large structural variations

When using Oxford Nanopore Technologies (ONT) sequencing, the change in electrical current is measured over the membrane of a flow cell. When nucleotides pass the pores in the flow cell the current change is translated (basecalled) to nucleotides by a basecaller. A schematic overview is given in the picture above.

When sequencing using a MinIT or MinION Mk1C, the basecalling software is present on the devices. With basecalling the electrical signals are translated to bases (A,T,G,C) with a quality score per base. The sequenced DNA strand will be basecalled and this will form one read. Multiple reads will be stored in a fastq file.

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Key points

• ullam porttitor urna at mi vulputate convallis.

• Cras mattis tempor interdum. Cras dignissim, ligula ut vulputate efficitur, lacus metus congue urn

Frequently Asked Questions

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Citing this Tutorial

1. Saskia Hiltemann, Lorum Ipsum (Galaxy Training Materials). https://training.galaxyproject.org/training-material/testpages/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{-,
author = "Saskia Hiltemann",
	title = "Lorum Ipsum (Galaxy Training Materials)",
	year = "",
	month = "",
	day = "",
	url = "\url{https://training.galaxyproject.org/training-material/testpages/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}
}

                   

References

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

Saskia Hiltemann

Want to extend your knowledge?

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• slides Slides: A short introduction to Galaxy
• tutorial Hands-on: A short introduction to Galaxy

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