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.

Material

Uploading Data

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

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

Histories

Managing your analysis histories efficiently

Lesson Slides Hands-on Recordings
Searching Your History
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 Recordings
Group tags for complex experimental designs
tutorial
Multisample Analysis tutorial
Name tags for following complex histories
tutorial
Using dataset collections tutorial

Workflows

Using Galaxy workflows to scale analysis

Lesson Slides Hands-on Recordings
Automating Galaxy workflows using the command line tutorial
Creating, Editing and Importing Galaxy Workflows tutorial
Extracting Workflows from Histories tutorial
Galaxy workflows in Dockstore
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Using Workflow Parameters tutorial
Workflow Reports tutorial

Analysing Data

Some advanced topics in data analysis.

Lesson Slides Hands-on Recordings
InterMine integration with Galaxy
tutorial
JupyterLab in Galaxy tutorial
RStudio in Galaxy tutorial
Use Jupyter notebooks in Galaxy
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
tutorial

Other


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.

Maintainers

This material is maintained by:

orcid logoAvatarJennifer Hillman-Jackson orcid logoAvatarHelena 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 orcid logoAvatarHelena Rasche AvatarDave Clements AvatarAvani Khadilkar AvatarElizabeth Sheets AvatarCharles Overbeck AvatarEnis Afgan AvatarAnne Pajon AvatarMaria Doyle orcid logoAvatarSaskia Hiltemann AvatarDaniela Butano AvatarYo Yehudi AvatarAnne Fouilloux AvatarAnton Nekrutenko orcid logoAvatarBérénice Batut orcid logoAvatarFotis E. Psomopoulos orcid logoAvatarToby Hodges AvatarErasmus+ Programme orcid logoAvatarJohn Chilton AvatarJon Trow AvatarAdelaide Rhodes AvatarMiguel Roncoroni AvatarMartin Čech AvatarDelphine Lariviere