SV merging for each sample for graph construction

[aamirwkhan06]

Hi,

I would like to understand how we can merge SVs from different SV callers such as Sniffles, cuteSV, svim, pbsv, and assemblytics? The merging with SURVIVOR gives a union of the SV calls for each sample and results in calls of an SV from each of these callers in the merged VCF file for each sample. How can we merge to get a consensus single SV genotype called for each sample and get the depth information for this consensus SV call?

I also tried installing WGSc, but I got a make-install error. Could you please explain what mergeSVs function does in WGSc and how it works to get a consensus call for a single sample?

I appreciate the help!

Thank you.

Best regards,
Aamir