Fusions from Short Read Illumina Data about ribbon

[MariaNattestad]

Ribbon may not be able to find the location of the other alignments on its own from the read pairs. It uses the SA tags for long reads to find the other alignments automatically, but paired-end reads mark their partners differently.
To get it to show the regions you want, you'll probably want to load a bedpe file (see the format here) under "Upload variants", which can be for all the variants you want to show or just this one, and then select the row with the pair of coordinates you want to pull up -- i.e. the same ones you were showing in IGV.

I hope that helps!

[jennylsmith]

Thank you! I will create a bedpe file and see if that will work!