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 |
|---|---|---|---|---|---|
| From small to large-scale genome comparison | |||||
| Genome annotation with Prokka | |||||
| Refining Genome Annotations with Apollo (prokaryotes) | |||||
| Comparative gene analysis in unannotated genomes |
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:
Anton Nekrutenko
Wolfgang Maier
Thoba Lose
Tristan Reynolds
Torsten Seemann
Bérénice Batut
Maria Doyle
Anna Syme
Simon Gladman
Jennifer Hillman-Jackson
Anika Erxleben
Lucille Delisle
Enis Afgan
Nicola Soranzo
Helena Rasche
Esteban Perez-Wohlfeil
Mateo Boudet
William Durand
Galo A. Goig
Daniela Brites
Ekaterina Polkh
Björn Grüning
Cristóbal Gallardo
Stéphanie Robin
Alex Ostrovsky
Nathan Dunn
Saskia Hiltemann
Linelle Abueg
Peter van Heusden
Gildas Le Corguillé
Anthony Bretaudeau
Delphine Lariviere
Simon Bray
Niall Beard
Mélanie Petera
Christoph Stritt
Funding
These individuals or organisations provided funding support for the development of this resource
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.
ELIXIR Europe
Melbourne Bioinformatics
Australian BioCommons
The University of Melbourne