Question about output

[mylena-s]

Hi!
Thanks again for the tools!
I am using plotsr with syri output. I was wondering if there is any way to get the ids of the plotted rearrangements (since they are a subset of all SV detected by syri)?

Thanks!

[mnshgl0110]

By default, plotsr plots rearrangements larger than 10kb (either on the reference or the query genome) (parameter -s). You can fetch such rearrangements from syri.out, re-format and parse them to plotsr as markers.txt. Unfortunately, this would require some scripting as there is no direct method to do this.