simFmodel: Simulation of multi-locus genetic data from the spatial...

In gilles-guillot/Geneland: Clustering of living organisms from geo-referenced genetic and/or morphometrics data

Description

Simulation of multi-locus genetic data from the spatial F-model

Usage

simFmodel(
  nindiv,
  coordinates,
  coord.lim = c(0, 1, 0, 1),
  number.nuclei,
  coord.nuclei,
  color.nuclei,
  nall,
  npop,
  freq.model = "Uncorrelated",
  drift,
  dominance = "Codominant",
  plots = FALSE,
  ploth = FALSE
)

Arguments

nindiv	Simulation of multi-locus genetic data from the spatial F-model
coordinates	Matrix (2 rows, nindiv columns) of spatial coordinates of individuals
coord.lim	Vector of limits of spatial domain to be considered (x min, x max, y min, y max)
number.nuclei	Integer: number of nuclei in the Voronoi tessellation
coord.nuclei	Coordinates of nuclei of Voronoi tessellation
color.nuclei	Population labels of the nuclei (vector of integers of size number.nuclei)
nall	Vector of integers giving number of alleles at each locus
npop	Number of populations
freq.model	model for frequencies:"Correlated" or "Uncorrelated"
drift	Vector (of size npop) of drift factors between 0 and 1 (only for the Correlated model)
dominance	A character string "Codominant" or "Dominant". If "Dominant" is chosen, the first allele is treated as a recessive allele and all heterozigous are converted into homozigous for the dominant allele. The presence of the "dominant" allele is coded as 1, the absence of the "dominant" allele is coded as 0.
plots	Logical: if TRUE, spatial coordinates are ploted
ploth	Logical: if TRUE, barplots for allele frequencies are ploted

Value

A list of variables involved in the simulation. The elements of this list are: coordinates, genotypes, allele.numbers, number.nuclei, coord.nuclei, color.nuclei, frequencies, ancestral.frequencies, drifts, index.nearest.nucleus

gilles-guillot/Geneland documentation built on Feb. 24, 2020, 11:44 a.m.