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 maintained by:Helena RascheSimon GladmanAnthony 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:Laura LeroiTorsten SeemannSimon GladmanAnton NekrutenkoAnthony BretaudeauHelena RascheDelphine LariviereBjörn GrüningAlexandre CormierNathan DunnErasmus+ ProgrammeEsteban Perez-WohlfeilBérénice BatutTwishi GulatiMaria DoyleMateo BoudetAnika ErxlebenAnna SymeKenji FujiharaJonathan KreplakStéphanie RobinErwan Corre