get.pca: Principle components analysis

In MoBPS: Modular Breeding Program Simulator

Description

Function to perform a principle component analysis

Usage

get.pca(
  population,
  path = NULL,
  database = NULL,
  gen = NULL,
  cohorts = NULL,
  coloring = "group",
  components = c(1, 2),
  plot = TRUE,
  pch = 1,
  export.color = FALSE
)

Arguments

population	Population list
path	Location were to save the PCA-plot
database	Groups of individuals to consider for the export
gen	Quick-insert for database (vector of all generations to export)
cohorts	Quick-insert for database (vector of names of cohorts to export)
coloring	Coloring by "group", "sex", "plain"
components	Default: c(1,2) for the first two principle components
plot	Set to FALSE to not generate a plot
pch	Point type in the PCA plot
export.color	Set to TRUE to export the per point coloring

Value

Genotype data for in gen/database/cohorts selected individuals

Examples

data(ex_pop)
get.pca(ex_pop, gen=2)

MoBPS documentation built on Nov. 9, 2021, 5:08 p.m.