Using Galaxy and Managing your Data

A collection of microtutorials explaining various features of the Galaxy user interface and manipulating data within Galaxy.

Material

Uploading Data

These tutorials will help you get data into Galaxy, before you analyse it.

Lesson Slides Hands-on
Getting data into Galaxy
plain text
Rule Based Uploader
Intermediate
tutorial
Rule Based Uploader: Advanced
Advanced
tutorial
SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis
plain text tutorial

Galaxy Features

Learn how to use Galaxy efficiently

Lesson Slides Hands-on
Extracting Workflows from Histories
tutorial
Searching Your History
Introductory
tutorial
Understanding Galaxy history system
tutorial

Making Data Manageable

Now that you have data in Galaxy, let's make it easier to work with through collections and structured data.

Lesson Slides Hands-on
Group tags for complex experimental designs
tutorial
Multisample Analysis
Advanced
tutorial
Name tags for following complex histories
tutorial
Using dataset collections
Intermediate
tutorial

Analysing Data

Some advanced topics in data analyis.

Lesson Slides Hands-on
Automating Galaxy workflows using the command line
tutorial
Creating, Editing and Importing Galaxy Workflows
Intermediate
tutorial
InterMine integration with Galaxy
tutorial
JupyterLab in Galaxy
tutorial
RStudio in Galaxy
tutorial
Use Jupyter notebooks in Galaxy
tutorial
Using Workflow Parameters
Intermediate
tutorial

Download and free up space

Once you are done with your analyses in Galaxy, it's time to download your data and free up space.

Lesson Slides Hands-on
Downloading and Deleting Data in Galaxy
Introductory
tutorial

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 AvatarHelena Rasche

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:

AvatarSimon Bray AvatarWolfgang Maier AvatarMarius van den Beek AvatarSimon Gladman AvatarHelena Rasche AvatarDave Clements AvatarAnne Pajon AvatarMaria Doyle AvatarSaskia Hiltemann AvatarDaniela Butano AvatarYo Yehudi AvatarAnne Fouilloux AvatarAnton Nekrutenko AvatarBérénice Batut AvatarFotis E. Psomopoulos AvatarToby Hodges AvatarJohn Chilton AvatarJon Trow AvatarAdelaide Rhodes AvatarMartin Čech AvatarDelphine Lariviere