ctc (version 1.46.0)

xcluster2r: Importing Xcluster/Cluster output

Description

Converting Xcluster/Cluster output (.gtr or .atr) to R hclust file

Usage

xcluster2r(file,distance="euclidean",labels=FALSE,fast=FALSE,clean=FALSE, dec='.')

Arguments

file

the path of a Xcluster/Cluster file (.gtr or .atr)

distance

The distance measure used with Xcluster/Cluster. This must be one of "euclidean", "pearson" or "notcenteredpearson". Any unambiguous substring can be given.

labels

a logical value indicating whether we use labels values (in the .cdt file) or not.

fast

a logical value indicating whether we reorganize data like R (Fast=FALSE) or we let them like Xcluster/Cluster did

clean

a logical value indicating whether you want the true distances (clean=FALSE), or you want a clean dendrogram (see details below).

dec

the character used in the file for decimal points

Value

An object of class hclust which describes the tree produced by the clustering process.

Details

See xcluster for more details.

References

Antoine Lucas and Sylvain Jasson, Using amap and ctc Packages for Huge Clustering, R News, 2006, vol 6, issue 5 pages 58-60.

See Also

xcluster, r2xcluster, hclust, hcluster

Examples

#    Create data
set.seed(1)
m <- matrix(rep(1,3*24),ncol=3)  
m[9:16,3] <- 3 ; m[17:24,] <- 3    #create 3 groups
m <- m+rnorm(24*3,0,0.5)           #add noise
m <- floor(10*m)/10                #just one digits

r2xcluster(m)


# And once you have Xcluster program:
#
#system('Xcluster -f xcluster.txt -e 0 -p 0 -s 0 -l 0')
#h <- xcluster2r('xcluster.gtr')
#plot(h,hang=-1)