I just started working with PacBio and Nanopore long reads, after some preliminary QCing I mapped the reads using minimap2.
I am looking at the inversions for now and I have igv images for one of my regions. I want to know is it how I should expect to see the inversions on IGV? I do not understand whether the gaps are oK or should I expect the reads below the gaps or should I expect to see them filling the gaps? Thanks for any help interpreting it.