PlotOutliers: PlotOutliers

In SofieVG/FlowSOM: Using self-organizing maps for visualization and interpretation of cytometry data

PlotOutliers

Description

Visual overview of outliers

Usage

PlotOutliers(fsom, outlierReport)

Arguments

fsom	FlowSOM object.
outlierReport	Outlier overview as generated by TestOutliers()

Value

Plot

Examples

# Identify the files
fcs <- flowCore::read.FCS(system.file("extdata", "68983.fcs", 
                                      package = "FlowSOM"))
# Build a FlowSOM object
flowSOM.res <- FlowSOM(fcs, 
                       scale = TRUE,
                       compensate = TRUE, 
                       transform = TRUE,
                       toTransform = 8:18, 
                       colsToUse = c(9, 12, 14:18),
                       nClus = 10,
                       seed = 1)
outlierReport <- TestOutliers(flowSOM.res)
p <- PlotOutliers(flowSOM.res, outlierReport)                       

SofieVG/FlowSOM documentation built on Feb. 1, 2024, 11:33 a.m.