.ggDensity {singleCellTK}R Documentation

Density plot plotting tool.

Description

Visualizes values stored in the specified slot of a SingleCellExperiment object via a density plot.

Usage

.ggDensity(
  value,
  groupBy = NULL,
  xlab = NULL,
  ylab = NULL,
  baseSize = 12,
  axisSize = NULL,
  axisLabelSize = NULL,
  defaultTheme = TRUE,
  title = NULL,
  titleSize = NULL,
  combinePlot = "none",
  cutoff = NULL
)

Arguments

value

Numeric value that will be plotted via density plot.

groupBy

Groupings for each numeric value. A user may input a vector equal length to the number of the samples in the SingleCellExperiment object, or can be retrieved from the colData slot. Default NULL.

xlab

Character vector. Label for x-axis. Default NULL.

ylab

Character vector. Label for y-axis. Default NULL.

baseSize

The base font size for all text. Default 12. Can be overwritten by titleSize, axisSize, and axisLabelSize.

axisSize

Size of x/y-axis ticks. Default NULL.

axisLabelSize

Size of x/y-axis labels. Default NULL.

defaultTheme

Removes grid in plot and sets axis title size to 10 when TRUE. Default TRUE.

title

Title of plot. Default NULL.

titleSize

Size of title of plot. Default 15.

combinePlot

Must be either "all", "sample", or "none". "all" will combine all plots into a single .ggplot object, while "sample" will output a list of plots separated by sample. Default "none".

cutoff

Numeric value. The plot will be annotated with a vertical line if set. Default NULL.

Value

density plot, in .ggplot.


[Package singleCellTK version 2.2.0 Index]