遗传多样性的指标

anneng

genetic diversity(D值)
nucleotide diversity, D, was calculated as the mean pairwise genetic distance of the haplotypes obtained from MEGA X v10.1.8

Shannon entropy (Sn)
S = −pilnpi, where pi is the frequency of each haplotype in the viral quasispecies population

viral evolutionary rates

anneng

遗传多样性里面有一个很重要的概念叫作haplotypes reconstruction 单倍型重构在一个个体中因为病毒的变异可能会存在不同的 quasispecies 这些亚种如何用单倍型进行区分对后续的治疗很有影响

https://sci-hub.st/10.1093/bib/bbs081

图中淡蓝色和深色是两个不同的单倍型不同reads 情况就比较复杂