Using IGV with Galaxy

You can send data from your Galaxy history to IGV for viewing as follows:

1. Install IGV on your computer (IGV download page)
2. Start IGV
3. In recent versions of IGV, you will have to enable the port:
   • In IGV, go to View > Preferences > Advanced
   • Check the box Enable Port
4. In Galaxy, expand the dataset you would like to view in IGV
   • Make sure you have set a reference genome/database correctly (dbkey) (instructions)
   • Under display in IGV, click on local

Still have questions?

Want to embed this snippet (FAQ) in your GTN Tutorial?

{% snippet  topics/galaxy-interface/faqs/visualisations_igv.md %}