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

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

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

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

Examples

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

HierDpart documentation built on March 31, 2021, 5:09 p.m.