Detecting CNV's (copy number variation) in haploid yeast cells

Question

[Rezenman]

Hey all,

I have whole-genome-sequencing data from 22 yeast strains grown in lab evolution experiments. I want to compute copy number variation to see whether a specific gene/chromosome was duplicated throughout the experiment. I am struggling to find a good, well-documented tool for specifically computing CNVs and would love some suggestions.

Thanks a lot, Shahar

[bk11]

You can try CNVnator. I had some good luck with it before.

https://github.com/abyzovlab/CNVnator

[Rezenman]

Thanks, I'll give it a try