plotDistributions: Plot distribution of observed values

In fmicompbio/mutscan: Preprocessing and Analysis of Deep Mutational Scanning Data

Plot distribution of observed values

Description

Plot distribution of observed values

Usage

plotDistributions(
  se,
  selAssay = "counts",
  groupBy = NULL,
  plotType = "density",
  facet = FALSE,
  pseudocount = 0
)

Arguments

se	A SummarizedExperiment object, typically generated by summarizeExperiment().
selAssay	Character scalar specifying the assay in se to use for the plotting.
groupBy	Character scalar specifying a column from colData(se) to use for coloring or stratifying the plots.
plotType	Character scalar specifying the type of plot to construct. Either 'density', 'histogram' or 'knee'.
facet	Logical scalar, indicating whether or not to facet the plot by the values specified in the groupBy column.
pseudocount	Numeric scalar, representing the number to add to the observed values in the selAssay assay before plotting.

Value

A ggplot object.

Author(s)

Charlotte Soneson

Examples

se <- readRDS(system.file("extdata", "GSE102901_cis_se.rds", 
                          package = "mutscan"))[1:200, ]
plotDistributions(se)

fmicompbio/mutscan documentation built on March 30, 2024, 9:13 a.m.