Genome Annotation

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.

Requirements

Before diving into this topic, we recommend you to have a look at:

Material

Lesson Slides Hands-on Input dataset Workflows Galaxy tour Galaxy instances
Introduction to Genome Annotation
Essential genes detection with Transposon insertion sequencing
bacteria tnseq essential genes
Genome Annotation
prokaryote
Genome annotation with Maker
eukaryote
Genome annotation with Prokka
prokaryote

Galaxy instances

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 -d -p 8080:80 quay.io/galaxy/genome-annotation-training

It will launch a flavored Galaxy instance available on http://localhost:8080.

Maintainers

This material is maintained by:

Helena RascheHelena Rasche, Simon GladmanSimon Gladman, Anthony BretaudeauAnthony Bretaudeau

For any question related to this topic and the content, you can contact them or visit our Gitter channel.

Contributors

This material was contributed to by:

Anthony BretaudeauAnthony Bretaudeau, Helena RascheHelena Rasche, Delphine LariviereDelphine Lariviere, Bérénice BatutBérénice Batut, Anika ErxlebenAnika Erxleben, Björn GrüningBjörn Grüning, Anna SymeAnna Syme, Torsten SeemannTorsten Seemann, Simon GladmanSimon Gladman