plot_allele_desc: Function to plot inheritance of alleles
In simplydch/GeneDrop: Drops Genes Down A Pedigree And Tracks Alleles

plot_allele_desc

R Documentation

Function to plot inheritance of alleles

Description

Function to plot inheritance of both alleles present at a locus in an individual from a gene_drop_object

Usage

plot_allele_desc(
  gene_drop_object,
  id,
  loci,
  col_sire = "#f1a340",
  col_dam = "#998ec3",
  line_trans = 0.6,
  point_trans = 1,
  focal_cex = 1.5,
  point_cex = 0.6,
  background = TRUE,
  cohort_labels = TRUE,
  id_labels = FALSE
)

Arguments

`gene_drop_object`	A gene_drop_object from gene-dropping
`id`	A numerical or character scalar of the focal ID to plot.
`loci`	A numeric scalar of the locus to plot.
`col_sire`	A character scalar determining the solid colour used for sires. Should be a colour name, integer, or hexadecimal string of the form "#rrggbb". The default is "#f1a340".
`col_dam`	A character scalar determining the solid colour used for dams. Should be a colour name, integer, or hexadecimal string of the form "#rrggbb". The default is "#998ec3".
`line_trans`	A numeric scalar between 0 and 1 determining the transparency of the plotted lines. The default is 0.6, setting to 0 hides the points.
`point_trans`	A numeric scalar between 0 and 1 determining the transparency of the plotted points. The default is 1, setting to 0 hides the points.
`focal_cex`	A numeric scalar determining the size of the point for the focal individual. The default is 1.5.
`point_cex`	A numeric scalar determining the size of the points used for the descendants. The default is 0.6, setting this value to 0 allows only the point of the focal individual to be plotted.
`background`	logical TRUE or FALSE. When TRUE the complete pedigree is plotted in light grey. Default is TRUE but disabling will make plotting much faster.
`cohort_labels`	logical TRUE or FALSE. When TRUE cohort labels are printed down the left-hand side. Default is TRUE.
`id_labels`	logical TRUE or FALSE. When TRUE id labels are printed above each point. Default is FASLE.