Groups_Sup {AutoPipe}

cluster the samples

Description

This function clusters the samples into x clusters.

Usage

Groups_Sup(me_TOP, me, number_of_k,TRw)

Arguments

me_TOP

the matrix with the n top genes, usually the from output of the function TopPAM

me

the original expression matrix. (with genes in rows and samples in columns).

number_of_k

the number of clusters

TRw

threshold for the elemenation of the samples with a Silhouette width lower than TRw. Default value is -1.

Examples

## load data
library(org.Hs.eg.db)
data(rna)
me_x=rna
res<-AutoPipe::TopPAM(me_x,max_clusters = 8, TOP=100)
me_TOP=res[[1]]
number_of_k=res[[3]]
File_genes=Groups_Sup(me_TOP, me=me_x, number_of_k,TRw=-1)
groups_men=File_genes[[2]]
me_x=File_genes[[1]]