prokaryote
Tutorials covering prokaryote
Material
You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides (slides) and tutorial (tutorial) buttons below.Assembly
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
|---|---|---|---|---|---|
| Making sense of a newly assembled genome | |||||
| Unicycler Assembly |
Evolution
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
|---|---|---|---|---|---|
| Identifying tuberculosis transmission links: from SNPs to transmission clusters | |||||
| Tree thinking for tuberculosis evolution and epidemiology |
Genome Annotation
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
|---|---|---|---|---|---|
| Comparative gene analysis in unannotated genomes | |||||
| From small to large-scale genome comparison | |||||
| Genome annotation with Prokka | |||||
| Pangenome analysis with Roary | |||||
| Refining Genome Annotations with Apollo (prokaryotes) |
Variant Analysis
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
|---|---|---|---|---|---|
| Calling variants in non-diploid systems | |||||
| M. tuberculosis Variant Analysis | |||||
| Microbial Variant Calling |
Contributors
This material was contributed to by:
Bérénice Batut
Björn Grüning
Peter van Heusden
Esteban Perez-Wohlfeil
Nicola Soranzo
Stéphanie Robin
Helena Rasche
Lucille Delisle
Niklas Mayle
Nathan Dunn
William Durand
Mateo Boudet
Jennifer Hillman-Jackson
Galo A. Goig
Wolfgang Maier
Maria Doyle
Tristan Reynolds
Daniela Brites
Anika Erxleben
Cristóbal Gallardo
Saim Momin
Gildas Le Corguillé
Mélanie Petera
Anthony Bretaudeau
Saskia Hiltemann
Alex Ostrovsky
Ekaterina Polkh
Anton Nekrutenko
Delphine Lariviere
Christoph Stritt
Niall Beard
Simon Bray
Anna Syme
Enis Afgan
Torsten Seemann
Thoba Lose
Simon Gladman
Linelle Abueg
Funding
These individuals or organisations provided funding support for the development of this resource
Australian BioCommons
ELIXIR Europe
Melbourne Bioinformatics
Gallantries
This project (2020-1-NL01-KA203-064717) is funded with the support of the Erasmus+ programme of the European Union. Their funding has supported a large number of tutorials within the GTN across a wide array of topics.
EuroScienceGateway
EuroScienceGateway was funded by the European Union programme Horizon Europe (HORIZON-INFRA-2021-EOSC-01-04) under grant agreement number 101057388 and by UK Research and Innovation (UKRI) under the UK government’s Horizon Europe funding guarantee grant number 10038963.
The University of Melbourne