VQSR for single sample exome/targeted regions
I read on the best practices slides that I should not use VQSR if the cohort is small. I only one sample for a single individual. I was wondering how useful it is to perform VQSR on this sample by using the GVCFs from 1000G? Am I losing a lot by not doing VQSR step for a single sample? I have some parameters in mind that I want the final VCF to satisfy: Min Q and Min depth.