build.charmatrix: Internal: create character matrix out of allele list

In prabclus: Functions for Clustering and Testing of Presence-Absence, Abundance and Multilocus Genetic Data

Internal: create character matrix out of allele list

Description

For use in alleleinit. Creates a matrix of characters in which there are two rows for every individual corresponding to the two alleles in every locus (column) out of a list of lists, such as required by alleledist.

Usage

   build.charmatrix(allelelist,n.individuals,n.variables)

Arguments

allelelist	A list of lists. In the "outer" list, there are n.variables lists, one for each locus. In the "inner" list, for every individual there is a vector of two codes (typically characters, see alleleinit) for the two alleles in that locus.
n.individuals	integer. Number of individuals.
n.variables	integer. Number of loci.

Value

A matrix of characters in which there are two rows for every individual corresponding to the two alleles in every locus (column).

Author(s)

Christian Hennig [e-mail] https://www.unibo.it/sitoweb/christian.hennig/en

See Also

alleleinit, unbuild.charmatrix

Examples

  alist <- list()
  alist[[1]] <- list(c("A","A"),c("B","A"),c(NA,NA))
  alist[[2]] <- list(c("A","C"),c("B","B"),c("A","D"))
  build.charmatrix(alist,3,2)

prabclus documentation built on Oct. 24, 2023, 1:06 a.m.