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
Getting data into Galaxy	plain text Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages Plain text slides
Rule Based Uploader		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
Rule Based Uploader: Advanced		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis	plain text Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages Plain text slides	tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages

Galaxy Features

Learn how to use Galaxy efficiently

Lesson	Slides	Hands-on
Extracting Workflows from Histories		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
Galaxy workflows in Dockstore	plain text Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages Plain text slides
Searching Your History		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
Understanding Galaxy history system		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages

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	Galaxy instances
Group tags for complex experimental designs		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
Multisample Analysis		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
Name tags for following complex histories		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
Using dataset collections		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages

Analysing Data

Some advanced topics in data analyis.

Lesson	Hands-on	Galaxy instances
Automating Galaxy workflows using the command line	tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages	instances Galaxy Africa Galaxy India Galaxy@GenOuest Street Science UseGalaxy.be UseGalaxy.eu UseGalaxy.fr UseGalaxy.org (Main) UseGalaxy.org.au
Creating, Editing and Importing Galaxy Workflows	tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages	instances CLIP-Explorer ChemicalToolbox Climate Science Workbench Galaxy Africa Galaxy India Galaxy Test Galaxy for Ecology Galaxy@AuBi Galaxy@GenOuest HiCExplorer Human Cell Atlas Machine Learning Workbench Metabolomics Metagenomics Migale NanoGalaxy PepSimili Plant Anaylsis Workbench Single Cell Omics workbench Street Science UseGalaxy.be UseGalaxy.eu UseGalaxy.fr UseGalaxy.no UseGalaxy.org (Main) UseGalaxy.org.au Virology covid19.UseGalaxy.fr
InterMine integration with Galaxy	tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages	instances CLIP-Explorer ChemicalToolbox Climate Science Workbench Galaxy Africa Galaxy India Galaxy Test Galaxy for Ecology Galaxy@GenOuest HiCExplorer Human Cell Atlas Machine Learning Workbench Metabolomics Metagenomics NanoGalaxy Plant Anaylsis Workbench Single Cell Omics workbench Street Science UseGalaxy.be UseGalaxy.eu UseGalaxy.no UseGalaxy.org (Main) UseGalaxy.org.au Virology
JupyterLab in Galaxy	tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
RStudio in Galaxy	tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
Use Jupyter notebooks in Galaxy	tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages
Using Workflow Parameters	tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages	instances CLIP-Explorer ChemicalToolbox Climate Science Workbench Galaxy Africa Galaxy India Galaxy Test Galaxy for Ecology Galaxy@AuBi Galaxy@GenOuest HiCExplorer Human Cell Atlas Machine Learning Workbench Metabolomics Metagenomics Migale NanoGalaxy PepSimili Plant Anaylsis Workbench Single Cell Omics workbench Street Science UseGalaxy.be UseGalaxy.eu UseGalaxy.fr UseGalaxy.no UseGalaxy.org (Main) UseGalaxy.org.au Virology covid19.UseGalaxy.fr

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	Galaxy instances
Downloading and Deleting Data in Galaxy		tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages

Other

Assorted other tutorials

Lesson	Slides	Hands-on	Galaxy instances
Submitting raw sequencing reads to ENA	plain text Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages Plain text slides	tutorial Toggle Dropdown Automatic translations Français 日本語 Español Português العربية More Languages	instances Galaxy Africa Galaxy India Galaxy@GenOuest Street Science UseGalaxy.be UseGalaxy.eu UseGalaxy.fr UseGalaxy.org.au

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.