FlowSOM (version 1.4.0)

BuildMST: Build Minimal Spanning Tree

Description

Add minimal spanning tree description to the FlowSOM object

Usage

BuildMST(fsom, silent = FALSE, tSNE = FALSE)

Arguments

fsom

FlowSOM object, as generated by BuildSOM

silent

If TRUE, no progress updates will be printed

tSNE

If TRUE, an alternative tSNE layout is computed as well

Value

FlowSOM object containing MST description

See Also

BuildSOM, PlotStars

Examples

# Read from file, build self-organizing map
fileName <- system.file("extdata","lymphocytes.fcs",package="FlowSOM")
flowSOM.res <- ReadInput(fileName, compensate=TRUE,transform=TRUE,
                         scale=TRUE)
flowSOM.res <- BuildSOM(flowSOM.res,colsToUse=c(9,12,14:18))

# Build the Minimal Spanning Tree
flowSOM.res <- BuildMST(flowSOM.res)