Delly on WGBS data

[bounlu]

Hi,

I am coming from here.

Basically, Delly is one of the tools suggested to identify SVs from WGBS data.

I am wondering to what extent this is possible. Is Delly aware of methylation at CpG sites?

[tobiasrausch]

Delly only evaluates paired-end mappings. So as long as you used an appropriate mapper for WGBS data it should work but I haven't tested this. Delly is not aware of methylation at CpG sites.