Upload data to Galaxy
Under Development!
This tutorial is not in its final state. The content may change a lot in the next months. Because of this status, it is also not listed in the topic pages.
OverviewQuestions:Objectives:
How to upload data to Galaxy
Learn how to upload a file by pasting in a URL
Learn how to import data from a shared library
Determine the best strategy to get data into Galaxy
Time estimation: 40 minutesLevel: Introductory IntroductorySupporting Materials:Last modification: Oct 18, 2022
Introduction
There are several ways to get data into Galaxy:
- Uploading a file by pasting in a URL
- Uploading a file from the computer
- Uploading using a FTP server
- Import an entire history
- Import data from a shared library
- …
Agenda
Upload a file via an URL
Hands-on: Data upload from URL
Create a new history
Click the new-history icon at the top of the history panel.
If the new-history is missing:
- Click on the galaxy-gear icon (History options) on the top of the history panel
- Select the option Create New from the menu
Copy the following URL
https://zenodo.org/record/582600/files/mutant_R1.fastq
Import it in the history
- Copy the link location
Open the Galaxy Upload Manager (galaxy-upload on the top-right of the tool panel)
- Select Paste/Fetch Data
Paste the link into the text field
Press Start
- Close the window
Import from a shared library
Hands-on: Data upload from URL
Create a new history
Click the new-history icon at the top of the history panel.
If the new-history is missing:
- Click on the galaxy-gear icon (History options) on the top of the history panel
- Select the option Create New from the menu
Copy the following URL
https://zenodo.org/record/582600/files/mutant_R1.fastq
Import it in the history
- Copy the link location
Open the Galaxy Upload Manager (galaxy-upload on the top-right of the tool panel)
- Select Paste/Fetch Data
Paste the link into the text field
Press Start
- Close the window
Key points
There are several ways to get data into Galaxy
you can upload a file by pasting in a web address, you can upload a file from your computer, and you can import an entire history.
Frequently Asked Questions
Have questions about this tutorial? Check out the FAQ page for the Introduction to Galaxy Analyses topic to see if your question is listed there. If not, please ask your question on the GTN Gitter Channel or the Galaxy Help ForumFeedback
Did you use this material as an instructor? Feel free to give us feedback on how it went.
Did you use this material as a learner or student? Click the form below to leave feedback.
Citing this Tutorial
- Bérénice Batut, 2022 Upload data to Galaxy (Galaxy Training Materials). https://training.galaxyproject.org/training-material/topics/introduction/tutorials/dummy/tutorial.html Online; accessed TODAY
- Batut et al., 2018 Community-Driven Data Analysis Training for Biology Cell Systems 10.1016/j.cels.2018.05.012
Congratulations on successfully completing this tutorial!@misc{introduction-dummy, author = "Bérénice Batut", title = "Upload data to Galaxy (Galaxy Training Materials)", year = "2022", month = "10", day = "18" url = "\url{https://training.galaxyproject.org/training-material/topics/introduction/tutorials/dummy/tutorial.html}", note = "[Online; accessed TODAY]" } @article{Batut_2018, doi = {10.1016/j.cels.2018.05.012}, url = {https://doi.org/10.1016%2Fj.cels.2018.05.012}, year = 2018, month = {jun}, publisher = {Elsevier {BV}}, volume = {6}, number = {6}, pages = {752--758.e1}, author = {B{\'{e}}r{\'{e}}nice Batut and Saskia Hiltemann and Andrea Bagnacani and Dannon Baker and Vivek Bhardwaj and Clemens Blank and Anthony Bretaudeau and Loraine Brillet-Gu{\'{e}}guen and Martin {\v{C}}ech and John Chilton and Dave Clements and Olivia Doppelt-Azeroual and Anika Erxleben and Mallory Ann Freeberg and Simon Gladman and Youri Hoogstrate and Hans-Rudolf Hotz and Torsten Houwaart and Pratik Jagtap and Delphine Larivi{\`{e}}re and Gildas Le Corguill{\'{e}} and Thomas Manke and Fabien Mareuil and Fidel Ram{\'{\i}}rez and Devon Ryan and Florian Christoph Sigloch and Nicola Soranzo and Joachim Wolff and Pavankumar Videm and Markus Wolfien and Aisanjiang Wubuli and Dilmurat Yusuf and James Taylor and Rolf Backofen and Anton Nekrutenko and Björn Grüning}, title = {Community-Driven Data Analysis Training for Biology}, journal = {Cell Systems} }