PlotStarsMSTRm: Plot FlowSOM tree with the capacity to remove the smalles...

In gautierstoll/CytoSOM: Easy use of FlowSOM

Description

PlotStarsMSTRm is a modified version of the FlowSOM function PlotStars, that plot the tree build through buildFSOMTree function and allows the removal of a given number of the smallest clusters that could prevent the spatial visualization of the tree. Modified PlotStarsMST function of FlowSOM, with removal of smallest clusters

Usage

PlotStarsMSTRm(
  fSOMObject,
  metaClustFactors,
  mainTitle,
  nbRm = 0,
  smallTree = F,
  equalSize = F
)

Arguments

fSOMObject	FlowSOM tree
metaClustFactors	meta-clusters
mainTitle	title of the plot
nbRm	number of the smallest clusters to remove
smallTree	true if tree is small and meta-cluster legend is big
equalSize	true if clusters are represented with identical sizes

Examples

PlotStarsMSTRm(fSOMObject=CytoTree$fSOMTree, metaClustFactors=CytoTree$metaCl,mainTitle="Experiment 1",nbRm=2)

gautierstoll/CytoSOM documentation built on May 16, 2020, 10:36 a.m.