genmap: Plot genetic/linkage map with all requested settings

In mschemmel/gmap: Visualize genetic/linkage maps

Plot genetic/linkage map with all requested settings

Description

Plot genetic/linkage map with all requested settings

Usage

genmap(
  linmap = NULL,
  lingroup = NULL,
  title = "",
  linkage.width = 0.4,
  label.x = "Distance (cM)",
  label.chr = NULL,
  cex.label.chr = 0.7,
  marker.color = "deepskyblue3",
  marker.count.color = "deepskyblue3",
  marker.count.width = 5,
  draw.border = TRUE,
  highlight.marker = NULL,
  highlight.marker.color = "red",
  show.axis = FALSE,
  show.marker.count = FALSE,
  cex.marker.count = 0.7,
  border = FALSE,
  border.linetype = "solid",
  border.linewidth = 1,
  border.color = "black",
  ...
)

Arguments

linmap	Data frame of all marker plus linkage groups and frequency values
lingroup	Character vector specifying the linkaga groups to draw
title	Title of the plot
linkage.width	Relative width of a single linkage group on plot (Default: 0.4)
label.x	Text label of the x axis (Default: "Distance (cM)")
label.chr	Text label shown beneath the linkage groups
cex.label.chr	Size of the linkage group text labels (Default: 0.7)
marker.color	Color of marker (Default: "deepskyblue")
marker.count.color	Color of the marker count annotation (Default: "deepskyblue")
marker.count.width	Width of bar of marker count annotation
draw.border	Boolean value if border around linkage group should be displayed (Default: TRUE)
highlight.marker	Character vector of all markers to highlight
highlight.marker.color	Color of highlighted marker (Default: "red")
show.axis	Boolean value if y axis should be displayed
show.marker.count	Boolean value if marker count annotation should be displayed
cex.marker.count	Size of text label of marker count annotation
border	Boolean value if border around plot area should be displayed (Default: FALSE)
border.linetype	Linetype of border line
border.linewidth	Value of line width of border around plot
border.color	Color of border around plot
...	further parameter of plot function (base R)

mschemmel/gmap documentation built on Oct. 30, 2022, 8:12 a.m.