boot.ppDeltaD: Bootstrapping test of pairwise allelic differentiation (Delta...

In xinghuq/HierDpart: Partitioning Diversity and Differentiation Across Metrics and Scales, from Genes to Ecosystems

Bootstrapping test of pairwise allelic differentiation (Delta D) between populations

Description

Do bootstrapping on pairwise allelic differentiation (Delta D) between populations and get the confidence interval.

Usage

boot.ppDeltaD(dat, ncode, nboot, quant = c(0.025, 0.975), diploid = TRUE, ...)

Arguments

dat	Genetic file
ncode	Genotype coding type
nboot	Number of bootstraps
quant	confidence interval
diploid	Ploidy
...

Details

Do bootstrapping on pairwise allelic differentiation (Delta D) between populations and get the confidence interval

Value

lowerl	lower confidence interval of pairwise allelic differentiation
uperl	uper confidence interval of pairwise allelic differentiation
DeltaD.per.loc	Delta D per locus

Author(s)

[e-mail]

References

Qin, X., & Gaggiotti, O. E. (2022). Information-based summary statistics for spatial genetic structure inference. Molecular Ecology Resources, 22(6), 2183-2195.

Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution, 39(4), 783-791.

Examples

f1 <- function(f) system.file("extdata", f,package="HierDpart")
boot.ppDeltaD(f1("Island.gen"), ncode=3,
nboot=999, quant = c(0.025, 0.975), diploid = TRUE)

xinghuq/HierDpart documentation built on March 21, 2023, 6:43 p.m.