mdsPlot: MDSplot in statTarget

In statTarget: Statistical Analysis of Molecular Profiles

Description

Multi-dimensional scaling plot of proximity matrix from randomForest.

Usage

mdsPlot(rForest,pimpModel,Labels = TRUE,slink = FALSE, 
slinkDat, ...)

Arguments

rForest	An object of class randomForest that contains the proximity component from statTarget_rForest function.
pimpModel	An object of permutation-based variable Gini importance measures (PIMP-algorithm) from statTarget_rForest function.
Labels	Labels is TRUE for visible the sample name in the figure else with the index for class.
slink	Logical indicating if slinkDat is active for extenal classID.
slinkDat	A data frame for the extenal classID.
...	A generic MDSplot function in randomForest package

Value

The output of cmdscale on 1 - rf$proximity is returned invisibly.

Author(s)

Hemi Luan, [e-mail]

See Also

MDSplot

Examples

datpath <- system.file('extdata',package = 'statTarget')
statFile <- paste(datpath,'data_example.csv', sep='/')
getFile <- read.csv(statFile,header=TRUE)
rFtest <- rForest(getFile,ntree = 10,times = 5)
mdsPlot(rFtest$randomForest,rFtest$pimpTest)

statTarget documentation built on Nov. 8, 2020, 8:27 p.m.