ggGroup: A ggplot-based ridge/violin plot wrapper function

In RyanYip-Kat/yipCat: Some function like ArchR style in Seurat Object

Description

This function is a wrapper around ggplot geom_density_ridges or geom_violin to allow for plotting group distribution plots in ArchR.

Usage

ggGroup(
  x = NULL,
  y = NULL,
  xlabel = NULL,
  ylabel = NULL,
  groupOrder = NULL,
  groupSort = FALSE,
  size = 1,
  baseSize = 10,
  ridgeScale = 1,
  ratioYX = NULL,
  alpha = 1,
  title = "",
  pal = paletteDiscrete(values = x, set = "stallion"),
  addBoxPlot = TRUE,
  plotAs = "ridges",
  ...
)

Arguments

x	A character vector containing the categorical x-axis values for each y-axis value.
y	A numeric vector containing the y-axis values for each point.
xlabel	The label to plot for the x-axis.
ylabel	The label to plot for the y-axis.
groupOrder	A character vector indicating a custom order for plotting x-axis categorical values. Should contain all possible values of 'x' in the desired order.
groupSort	A boolean indicating whether to sort groups based on the average value of the group.
size	The line width for boxplot/summary lines.
baseSize	The base font size (in points) to use in the plot.
ridgeScale	A numeric indicating the relative size for each ridge in the ridgeplot.
ratioYX	The aspect ratio of the x and y axes on the plot.
alpha	A number indicating the transparency to use for each point. See 'ggplot2' for more details.
title	The title of the plot.
pal	A named custom palette (see 'paletteDiscrete()' and 'ArchRPalettes') for discrete coloring.
addBoxPlot	A boolean indicating whether to add a boxplot to the plot if 'plotAs="violin"'.
plotAs	A string indicating how the groups should be plotted. Acceptable values are "ridges" (for a 'ggrides'-style plot) or "violin" (for a violin plot).
...	Additional parameters to pass to 'ggplot2' for plotting.

RyanYip-Kat/yipCat documentation built on Dec. 18, 2021, 11:55 a.m.