track_scaffold_window_depth: Scaffold depth window track

In INRA-LPGP/PoolSex-vis: Visualization of results from PSASS

Description

Draws a scaffold plot track for single sex SNP depth data. This function is intended for use in the draw_scaffold_plot function.

Usage

track_scaffold_window_depth(
  data,
  sex,
  scaffold.name,
  region,
  type = "absolute",
  major.lines.y = TRUE,
  major.lines.x = FALSE,
  ylim = NULL,
  color = NULL,
  bottom.track = FALSE
)

Arguments

data	depth window data frame.
sex	Sex to plot the data for, either "males" or "females".
scaffold.name	Name of the plotted scaffold (for the x axis).
region	A vector specifying the boundaries of the region to be plotted, e.g. c(125000, 250000).
type	Type of depth to use, either "absolute" or "relative" (default: "absolute").
major.lines.y	If TRUE, major grid lines will be plotted for the y axis (default: TRUE).
major.lines.x	If TRUE, major grid lines will be plotted for the y axis (default: TRUE).
ylim	Limits of the y axis (default: NULL).
color	Color of the plotted area. If NULL, "dodgerblue3" will be used for males and "firebrick2" for females (default: NULL).
bottom.track	If TRUE, this track will be considered bottom track of the plot and the x axis will be drawn (default: FALSE).

INRA-LPGP/PoolSex-vis documentation built on March 7, 2020, 6:03 p.m.