plotVarFeatures: Plot the variance vs mean of feature expression

In rliger: Linked Inference of Genomic Experimental Relationships

Plot the variance vs mean of feature expression

Description

For each dataset where the feature variablitity is calculated, a plot of log10 feature expression variance and log10 mean will be produced. Features that are considered as variable would be highlighted in red.

Usage

plotVarFeatures(object, combinePlot = TRUE, dotSize = 1, ...)

Arguments

object	liger object. selectGenes needs to be run in advance.
combinePlot	Logical. If TRUE, sub-figures for all datasets will be combined into one plot. if FALSE, a list of plots will be returned. Default TRUE.
dotSize	Controls the size of dots in the main plot. Default 0.8.
...	More theme setting parameters passed to .ggplotLigerTheme.

Value

ggplot object when combinePlot = TRUE, a list of ggplot objects when combinePlot = FALSE

Examples

pbmc <- normalize(pbmc)
pbmc <- selectGenes(pbmc)
plotVarFeatures(pbmc)

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