hierclus {Agi4x44PreProcess}R Documentation

Hierarchical clustering

Description

Hierarchical cluster of samples using the 'hclust' function

Usage

hierclus(object, GErep, methdis, methclu,sel, size)

Arguments

object An expression Matrix
GErep Numerical vector that relates each sample with its experimental condition
methdis the distance measure to be used. Options are 'euclidean' and 'pearson'. see 'dist' function
methclu the agglomeration method to be used by the 'hclust' function
sel logical, if TRUE selects the 'size' highest variance genes for the plot
size selects the 'size' highest variance genes for the plot if 'sel=TRUE'

Author(s)

Pedro Lopez-Romero

See Also

hclust,dist

Examples

## Not run: 
        data(dd)
        data(targets)
        GErep=targets$GErep
        selSNR=which(dd$genes$ControlType==0)
        dd.aux=dd[selSNR,]
        index=which(duplicated(dd.aux$genes$ProbeName)==FALSE)
        dd.aux=dd.aux[index,]
        hierclus(dd.aux$G,GErep,methdis="euclidean",
        methclu="complete",sel=FALSE,100)
## End(Not run)

[Package Agi4x44PreProcess version 1.2.0 Index]