r2xcluster {ctc} | R Documentation |
Converting data to Xcluster format
r2xcluster(data,labels=FALSE,description=FALSE,file="xcluster.txt")
file |
the path of the file |
data |
a matrix (or data frame) which provides the data to put into the file |
labels |
a logical value indicating whether we use the frist column as labels (NAME column for cluster file) |
description |
a logical value indicating whether we use the second column as description (DESCRIPTION column for cluster file) |
Xcluster is a C program made by Gavin Sherlock that performs hierarchical clustering, K-means and SOM.
Xcluster is copyrighted. To get or have information about Xcluster: http://genome-www.stanford.edu/~sherlock/cluster.html
Antoine Lucas, http://genopole.toulouse.inra.fr/~lucas/R
# Create data .Random.seed <- c(1, 416884367 ,1051235439) 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') #library(mva) #plot(h,hang=-1)