HACSim: an R package to estimate intraspecific sample sizes for genetic diversity assessment using haplotype accumulation curves.

ABSTRACT: Assessing levels of standing genetic variation within species requires a robust sampling for the purpose of accurate specimen identification using molecular techniques such as DNA barcoding; however, statistical estimators for what constitutes a robust sample are currently lacking. Moreover, such estimates are needed because most species are currently represented by only one or a few sequences in existing databases, which can safely be assumed to be undersampled. Unfortunately, sample sizes of 5-10 specimens per species typically seen in DNA barcoding studies are often insufficient to adequately capture within-species genetic diversity. Here, we introduce a novel iterative extrapolation simulation algorithm of haplotype accumulation curves, called HACSim (Haplotype Accumulati

SUBMITTER: Phillips JD 

PROVIDER: S-EPMC7924493 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature