Complete genomics genotype quality score for variant calls

Question

[MAPK]

I have been working with exome data and used GATK for variant calling which normally use quality score of >20. How does this translate to complete genomics variants. I have gone through a couple of threads in seqanswer. Can someone please point out major differences and common attributes/scores that needs to be considered for someone who has been using GATK while working with complete genomics data.