Hi fellow NGSers,
I've been doing NGS data analysis for a while. But lately when I was asked what's the statistics behind the variant/consensus calling of, say, SAMtools, I realized that I never thought of assigning a p value to a variance call. SAMtools document does not talk about statistics except for association studies. Is it because there's no statistical test involved in its variance calling? Do people know of any statistical methods being used in such type of tasks?
Thanks a lot!
I've been doing NGS data analysis for a while. But lately when I was asked what's the statistics behind the variant/consensus calling of, say, SAMtools, I realized that I never thought of assigning a p value to a variance call. SAMtools document does not talk about statistics except for association studies. Is it because there's no statistical test involved in its variance calling? Do people know of any statistical methods being used in such type of tasks?
Thanks a lot!
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