dot-ggCellViolin: Produce single violin plot with data frame passed from...

In rliger: Linked Inference of Genomic Experimental Relationships

Produce single violin plot with data frame passed from upstream

Description

Produce single violin plot with data frame passed from upstream

Usage

.ggCellViolin(
  plotDF,
  y,
  groupBy = NULL,
  colorBy = NULL,
  violin = TRUE,
  violinAlpha = 0.8,
  violinWidth = 0.9,
  box = FALSE,
  boxAlpha = 0.6,
  boxWidth = 0.4,
  dot = FALSE,
  dotColor = "black",
  dotSize = getOption("ligerDotSize"),
  xlabAngle = 45,
  raster = NULL,
  seed = 1,
  ...
)

Arguments

plotDF	Data frame like object (fortifiable) that contains all necessary information to make the plot.
y, groupBy, colorBy	See plotCellViolin.
violin, box, dot	Logical, whether to add violin plot, box plot or dot (scatter) plot, respectively. Layers are added in the order of dot, violin, and violin on the top surface. By default, only violin plot is generated.
violinAlpha, boxAlpha	Numeric, controls the transparency of layers. Default 0.8, 0.6, respectively.
violinWidth, boxWidth	Numeric, controls the width of violin/box bounding box. Default 0.9 and 0.4.
dotColor, dotSize	Numeric, globally controls the appearance of all dots. Default "black" and getOption("ligerDotSize") (1).
xlabAngle	Numeric, counter-clockwise rotation angle of X axis label text. Default 45.
raster	Logical, whether to rasterize the dot plot. Default NULL automatically rasterizes the dot plot when number of total cells to be plotted exceeds 100,000.
seed	Random seed for reproducibility. Default 1.
...	More theme setting arguments passed to .ggplotLigerTheme.

Value

ggplot object by default. When plotly = TRUE, returns plotly (htmlwidget) object.

rliger documentation built on Oct. 30, 2024, 1:07 a.m.