Introduction to Galaxy Analyses

Galaxy is a scientific workflow, data integration, and data and analysis persistence and publishing platform that aims to make computational biology accessible to research scientists that do not have computer programming experience.

Material

Core

These are the core, foundational topics for learning how to use Galaxy.

Lesson Slides Hands-on Input dataset Workflows Galaxy tour Galaxy instances
Introduction to Galaxy
slides
A short introduction to Galaxy
Introductory
plain text tutorial
From peaks to genes
Introductory
tutorial
Galaxy 101
Introductory
tutorial
Galaxy 101 for everyone
Introductory
tutorial
Introduction to Genomics and Galaxy
Introductory
tutorial
NGS data logistics
tutorial
Options for using Galaxy
plain text

R

These lessons focus on coding in R, using Galaxy analysis outputs as their basis.

Lesson Slides Hands-on Input dataset Workflows Galaxy tour Galaxy instances
Advanced R in Galaxy
Intermediate
tutorial
R basics in Galaxy
Introductory
tutorial

Other


Assorted other tutorials

Lesson Slides Hands-on Input dataset Workflows Galaxy tour Galaxy instances
IGV Introduction
tutorial

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/introduction-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

Common 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.

Maintainers

This material is maintained by:

AvatarJennifer Hillman-Jackson AvatarDave Clements

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:

AvatarAndrea Bagnacani AvatarBérénice Batut AvatarSaskia Hiltemann AvatarAnne Pajon AvatarNicola Soranzo AvatarHelena Rasche AvatarChristopher Barnett AvatarMichele Maroni AvatarAnne Fouilloux AvatarNadia Goué AvatarOlha Nahorna AvatarDave Clements AvatarAnna Syme AvatarFotis E. Psomopoulos AvatarToby Hodges AvatarClemens Blank AvatarBjörn Grüning AvatarDilmurat Yusuf AvatarSarah Peter AvatarAnton Nekrutenko AvatarJoachim Wolff AvatarMarius van den Beek AvatarDaniel Blankenberg AvatarAnthony Bretaudeau