Genome annotation is a multi-level process that includes prediction of protein-coding genes, as well as other functional genome units such as structural RNAs, tRNAs, small RNAs, pseudogenes, control regions, direct and inverted repeats, insertion sequences, transposons and other mobile elements.You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides (slides) and tutorial (tutorial) buttons below.
Before diving into this topic, we recommend you to have a look at:
Start here if you are new to genome annotation in Galaxy.
Introduction to Genome Annotation
Annotation of prokaryotic genomes.
|Genome annotation with Prokka|
|Refining Genome Annotations with Apollo (prokaryotes)|
|Essential genes detection with Transposon insertion sequencing|
Annotation of eukaryotic genomes.
From small to large-scale genome comparison
|Comparative gene analysis in unannotated genomes|
You can use a public Galaxy instance which has been tested for the availability of the used tools. They are listed along with the tutorials above.
You can also use the following Docker image for these tutorials:
docker run -p 8080:80 quay.io/galaxy/genome-annotation-training
NOTE: Use the -d flag at the end of the command if you want to automatically download all the data-libraries into the container.
It will launch a flavored Galaxy instance available on http://localhost:8080. This instance will contain all the tools and workflows to follow the tutorials in this topic. Login as admin with password password to access everything.
Frequently Asked QuestionsCommon questions regarding this topic have been collected on a dedicated FAQ page . Common questions related to specific tutorials can be accessed from the tutorials themselves.
This material is reviewed by our Editorial Board:Helena Rasche Simon Gladman Anthony Bretaudeau
For any question related to this topic and the content, you can contact them or visit our Gitter channel.
This material was contributed to by:Björn Grüning Anna Syme Kenji Fujihara Anton Nekrutenko Anthony Bretaudeau Maria Doyle Nathan Dunn Esteban Perez-Wohlfeil Jonathan Kreplak Alexandre Cormier Twishi Gulati Torsten Seemann Bérénice Batut Helena Rasche Erwan Corre Stéphanie Robin Anika Erxleben Mateo Boudet Laura Leroi Simon Gladman Delphine Lariviere
This material was funded by:Gallantries