prabclus: build.charmatrix – R documentation

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build.charmatrix

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 christian.hennig@unibo.it https://www.unibo.it/sitoweb/christian.hennig/en

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

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

v2.3-2

GPL

Authors

Christian Hennig <christian.hennig@unibo.it>, Bernhard Hausdorf <Hausdorf@zoologie.uni-hamburg.de>

Initial release

2020-01-06