Visualise duplications and inversions

Question

[priya.bmg]

Hello,

I have duplications and inversions identified using pbsv tools. Could anyone recommend a better visualization tool to analyse and confirm these variants. IGV provides good overview of insertions and deletions but not for duplications and inversions

Thank you

Priya

[Medhat]

Maybe try samplot: https://github.com/ryanlayer/samplot

[Wayne]

SVbyEye says it handles duplications and inversions.

[cmdcolin]

SVbyEye would probably be used in the case that you have e.g. a de-novo genome assembly to compare to the reference. it isn't built for visualizing raw reads. that said, it would be good at doing that if you did have a full de-novo genome assembly...you can then also try 'assembly based sv callers' for automated analysis with that