Tajima's D
2024-04-04 01:40:12
Three ways to assess the nucleotide diversity (heterozygosity).
The first is mean pairwise difference ∏, the average number of differences between pairs of sequences.
The second is number of segregating sites S. A segregating site is a site that is polymorphic in the data. the number of such sites is usually denoted by S (sometimes using K).
Last one is number of alleles Na.
Mean pairwise difference per nucleotide pi = ∏/L, where L is the length of sequences.
Tajima's D test the neutral mutation hypothesis θ=4Neμ=θT=θW. D=[(θT–θW)/Var(θT–θW)] , where θw=S/a, a=[1+1/2+1/3+...+1/(n–1)] (Watterson 1975), θt= ∏ (Tajima 1983)
The following content comes from https://en.wikipedia.org/wiki/Tajima's_D
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