Short read data
How to get short-read FASTQ files into Galaxy?
- In the tool panel, click on
Get Data - Click on
EBI SRA . This will open the ENA webpage. - In the top right, next to the search bar, click on
Advanced - For
Select domain click Read - Select other options as required.
- For example:
- For
Taxonomy and related enter Mycoplasma synoviae.
- For
- In the bottom right corner click
Search
- Click on Study
- Click PRJNA183042
- In the column
FASTQ files (Galaxy) click on File 1 - Galaxy will open in a new tab and this file will start to upload to your current history.
- Go back to the EBI browser tab and click on File 2. This will also upload into your current history.
- You can then close any open EBI browser tabs and any extra Galaxy tabs - you only need the one Galaxy tab open.
- To repeat for other short read data, select Read and then choose options required, such as taxon, library layout, instrument type, or date created.