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strataG (version 1.0.3)

Hstats: Population structure statistics

Description

Population structure statistics

Usage

Hstats(g)
statChi2(g, nrep = NULL, strata.mat = NULL, keep.null = FALSE, ...)
statFis(g, nrep = NULL, strata.mat = NULL, keep.null = FALSE, ...)
statFst(g, nrep = NULL, strata.mat = NULL, keep.null = FALSE, ...)
statFstPrime(g, nrep = NULL, strata.mat = NULL, keep.null = FALSE, ...)
statGst(g, nrep = NULL, strata.mat = NULL, keep.null = FALSE, ...)
statGstPrime(g, nrep = NULL, strata.mat = NULL, keep.null = FALSE,
  prime.type = c("nei", "hedrick"), ...)
statGstDblPrime(g, nrep = NULL, strata.mat = NULL, keep.null = FALSE, ...)
statJostD(g, nrep = NULL, strata.mat = NULL, keep.null = FALSE, ...)
statPhist(g, nrep = NULL, strata.mat = NULL, keep.null = FALSE,
  model = "K80", gamma = FALSE, pairwise.deletion = TRUE, ...)

Arguments

g
a gtypes object.
nrep
number specifying number of permutation replicates to use for permutation test.
strata.mat
an optional matrix of permuted stratifications. See Notes for more details. Ignored if nrep is not NULL.
keep.null
logical. Keep the null distribution from the permutation test?
...
optional arguments passed to or from other functions.
prime.type
type of G'st to calculate. Can be "nei" or "hedrick".
model, gamma, pairwise.deletion
parameters passed to dist.dna. Note that defaults for these arguments (in particular model) are the same as in dist.dna.

Value

  • A list with three elements: ll{ stat.name the name of the statistic. result a vector of the statistic estimate and the p-value, if replicates were conducted. null.dist a vector of the null distribution from the permutations. }