buildFSOMTree: Build and plot FlowSOM tree

In gautierstoll/CytoSOM: Easy use of FlowSOM

Description

BuildFSOMTree is a function that plot a tree based on the FlowSOM clusterization and metaclusterization algorithm. From data of interest contained in the DownLoadCytoData object, buildFSOMTree applies FlowSOM algorithm to cluster and metacluster data thanks to the markers of interest.

Usage

buildFSOMTree(fSOMDloaded, prettyNames, clustDim, metaClNb, fSOMSeed)

Arguments

fSOMDloaded	FlowSOM data dowloaded with DowLoadCytoData
prettyNames	list of markers names to include to build the tree
clustDim	dimension of the 2D cluster grid
metaClNb	number of metaclusters
fSOMSeed	seed of the random generator used for building the tree

Value

FlowSOM object that includes the correspondance between the clusters and the metaclusters and the name of the population of interest.

Examples

CytoTree=buildFSOMTree(fSOMloaded=CytoData,prettyNames=c("CD4","CD8","FoxP3"),ClustDim=4,metaClNb=6,fSOMSeed=1)

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