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:
Esteban Perez-Wohlfeil
Mateo Boudet
Cristóbal Gallardo
Galo A. Goig
Nathan Dunn
Lucille Delisle
Peter van Heusden
Björn Grüning
Gildas Le Corguillé
Saskia Hiltemann
Anton Nekrutenko
Tristan Reynolds
Nicola Soranzo
Mélanie Petera
Christoph Stritt
Thoba Lose
Jennifer Hillman-Jackson
William Durand
Anthony Bretaudeau
Wolfgang Maier
Niall Beard
Delphine Lariviere
Torsten Seemann
Ekaterina Polkh
Anna Syme
Daniela Brites
Alex Ostrovsky
Simon Bray
Linelle Abueg
Simon Gladman
Anika Erxleben
Enis Afgan
Bérénice Batut
Stéphanie Robin
Helena Rasche
Maria Doyle
Funding
These individuals or organisations provided funding support for the development of this resource
Australian BioCommons
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
The University of Melbourne