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?
Gitter Chat Support
Galaxy Help Forum
Want to embed this snippet (FAQ) in your GTN Tutorial?
{% snippet  topics/galaxy-interface/faqs/visualisations_igv.md %}