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:

• Introduction to Galaxy Analyses

Material

Introduction

Start here if you are new to genome annotation in Galaxy.

Prokaryotes

Annotation of prokaryotic genomes.

Eukaryotes

Annotation of eukaryotic genomes.

Other

Assorted Tutorials

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 -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 Questions

Maintainers

This material is maintained by:

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.

Contributors

This material was contributed to by:

Twishi Gulati

Anton Nekrutenko

Björn Grüning

Delphine Lariviere

Jonathan Kreplak

Laura Leroi

Erasmus+ Programme

Torsten Seemann

Alexandre Cormier

Helena Rasche

Anna Syme

Erwan Corre

Esteban Perez-Wohlfeil

Stéphanie Robin

Mateo Boudet

Anthony Bretaudeau

Maria Doyle

Nathan Dunn

Bérénice Batut

Anika Erxleben

Kenji Fujihara

Simon Gladman