Calling CNVs from WGS data

Question

[CH]

Hi all,

I want to do some whole-genome sequencing to validate CNVs and identify breakpoints for CNVs call by array data. I've been having a bit of a look around but I can't seem to find a consensus on the depth required to call CNVs accurately. Does anyone have any experience or advice on this?

Answer 1

[Chris Miller]

It depends on the resolution that you need, but I've called CNVs (fairly large scale) from 1x coverage or less. If you need exact breakpoints, you'll probably need substantially more.