Dataset

This page contains data for the tutorials.

Individual input files

Wildtype reference

• wildtype.fna
• wildtype.gbk
• wildtype.gff

Mutant Illumina sequence

• mutant_R1.fastq.gz
• mutant_R2.fastq.gz

Assembled contigs

• SPAdes_contigs.fasta

Upload to Galaxy

• Download required file(s) to your computer.
• From the Galaxy tool panel, click on Get Data → Upload File
• Click the Choose local file button
• Find and select the file you downloaded and click Open
• Set the Type correctly.
• Click the Start button.
• Once the progress bar reaches 100%, click the Close button
• The file will now upload to your current history.

Galaxy histories

• Galaxy history of input files
• Galaxy history: FastQC
• Galaxy history: Spades
• Galaxy history: Prokka
• Galaxy history: Snippy

To get the saved tutorial history (a set of files) into Galaxy:

• Right-click on Galaxy history of input files above and copy link address.
• Go to your Galaxy instance. Make sure you are registered and logged in. Refresh the page.
• Click on the History cog
• Select Import from File

• In the box called Archived History URL, paste in the link address to the Galaxy history.
• Click Submit
• Wait a few seconds.
• Click on the “view all histories” button
• See if the Galaxy history has been imported: it will be called imported from archive: Data
• Above that pane, click on the Switch to button.
• Then click Done (in the top left corner).
• You should now have a list of five files in your current history.