BuildMST: Build Minimal Spanning Tree

Description Usage Arguments Value See Also Examples

View source: R/3_buildMST.R

Description

Add minimal spanning tree description to the FlowSOM object

Usage

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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

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# 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)

FlowSOM documentation built on May 31, 2017, 11:26 a.m.