Hi! I’m trying to use gnomAD 3.1 to quantify the not normal frequencies of variants. In that sense, my general idea is that given one variant, e.g. A827G, I want to substract the counts corresponding to the studies coming from individuals that are assigned to haplogroups that are defined by that variant. I thought I could do these by checking phylotree variants assigned to each haplogroup, but I don’t know if this is a fine approach, plus there is the fact that in the case of A827G, this variant appears to be defining a subclade of B instead of being a top level marker and I’m unable to find deeper level of haplogroup detail in the reported counts coming from individuals assigned to the B haplogroup inside the gnomAD database.
Could you give me a hand to figure this out? Thanks in advance.