Using Galaxy and Managing your Data

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

You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides (slides) and tutorial (tutorial) buttons below.


Uploading Data

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

Lesson Slides Hands-on Recordings
Getting data into Galaxy
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Rule Based Uploader tutorial
Rule Based Uploader: 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 Recordings
Extracting Workflows from Histories tutorial
Galaxy workflows in Dockstore
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Searching Your History
Understanding Galaxy history system

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 Recordings
Group tags for complex experimental designs
Multisample Analysis tutorial
Name tags for following complex histories
Using dataset collections tutorial

Analysing Data

Some advanced topics in data analyis.

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


Assorted other tutorials

Lesson Slides Hands-on Recordings
Submitting raw sequencing reads to ENA plain text 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.


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.


This material was contributed to by:

AvatarSimon Bray AvatarWolfgang Maier AvatarMarius van den Beek AvatarSimon Gladman AvatarHelena Rasche AvatarDave Clements AvatarAvani Khadilkar AvatarElizabeth Sheets AvatarCharles Overbeck AvatarEnis Afgan AvatarAnne Pajon AvatarMaria Doyle AvatarSaskia Hiltemann AvatarDaniela Butano AvatarYo Yehudi AvatarAnne Fouilloux AvatarAnton Nekrutenko AvatarBérénice Batut AvatarFotis E. Psomopoulos AvatarToby Hodges AvatarErasmus+ Programme AvatarJohn Chilton AvatarJon Trow AvatarAdelaide Rhodes AvatarMiguel Roncoroni AvatarMartin Čech AvatarDelphine Lariviere