I am a bit confused between read deapth at the site level and sample level. What is the difference between these two? This is a little part of my vcf file, So I have DP at INFO and FORMAT ! This is my Site annotation
and this is my sample level annotation
GT:DP:DPR:RO:QR:AO:QA:GL . 0/0:8:8,0:8:273:0:0:0,-2.40824,-19
I would appreciate if anyone can elp me to undersatnd the difference between these two DP. If I want to do some vcf filtering based on sample DP which cut-off threshold is recommended? Thanks to take time and respond me in advance.