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 | Galaxy instances |
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Getting data into Galaxy
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plain text Toggle Dropdown | ||
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Rule Based Uploader
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tutorial Toggle Dropdown | ||
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Rule Based Uploader: Advanced
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tutorial Toggle Dropdown | ||
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SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis
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plain text Toggle Dropdown | tutorial Toggle Dropdown |
Galaxy Features
Learn how to use Galaxy efficiently| Lesson | Slides | Hands-on | Galaxy instances |
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Extracting Workflows from Histories
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tutorial Toggle Dropdown | ||
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Searching Your History
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tutorial Toggle Dropdown | ||
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Understanding Galaxy history system
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tutorial Toggle Dropdown |
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 |
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Group tags for complex experimental designs
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tutorial Toggle Dropdown | ||
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Multisample Analysis
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tutorial Toggle Dropdown | ||
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Name tags for following complex histories
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tutorial Toggle Dropdown | ||
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Using dataset collections
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tutorial Toggle Dropdown |
Analysing Data
Some advanced topics in data analyis.| Lesson | Slides | Hands-on | Galaxy instances |
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Automating Galaxy workflows using the command line
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tutorial Toggle Dropdown | instances | |
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Creating, Editing and Importing Galaxy Workflows
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tutorial Toggle Dropdown | instances | |
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InterMine integration with Galaxy
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tutorial Toggle Dropdown | instances | |
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JupyterLab in Galaxy
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tutorial Toggle Dropdown | ||
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RStudio in Galaxy
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tutorial Toggle Dropdown | ||
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Use Jupyter notebooks in Galaxy
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tutorial Toggle Dropdown | ||
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Using Workflow Parameters
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tutorial Toggle Dropdown | instances |
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 |
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Downloading and Deleting Data in Galaxy
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tutorial Toggle Dropdown |
Other
search
galaxy-cross
Assorted other tutorials
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Submitting raw sequencing reads to ENA
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plain text Toggle Dropdown | tutorial Toggle Dropdown | instances |
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:
Jennifer Hillman-Jackson
Helena 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:
Simon BrayWolfgang MaierMarius van den BeekSimon GladmanHelena RascheDave ClementsAnne PajonMaria DoyleSaskia HiltemannDaniela ButanoYo YehudiAnne FouillouxAnton NekrutenkoBérénice BatutFotis E. PsomopoulosToby HodgesJohn ChiltonJon TrowAdelaide RhodesMiguel RoncoroniMartin ČechDelphine Lariviere