[R] Space in label name

Gitte Brinch Andersen GITTEBA at HUM-GEN.AU.DK
Wed Nov 27 13:21:33 CET 2013


I am doing a cluster analysis and I have some troubles with the label names.

In the text file I have my data in, the first row contains the names of the samples. They are called "FFPE Tumor 2", "Fresh Frozen Tumor 2" etc.

But when the cluster is made the label names contains periods instead of space in the name.
I can't figure out how to change this, so I get spaces in the label names.
I hope someone can help?

The code I have used is:

#Set where you want to save your images/clusters
setwd("/Users/gban/Desktop/Lung Cancer/PAXgene article figures/PAXgene cluster + Venn analysis")

#Read in data
data<-read.table("/Users/gban/Desktop/Lung Cancer/PAXgene article figures/PAXgene cluster + Venn analysis/BetaValue_ALL_tumo1_dup2_Codename.txt",sep="\t",dec=",",header=TRUE)

# Throw out rows with missing values.
data = na.omit(data)

#Turn the data into a matrix

#Calculate the distance

#Make the cluster
hc = hclust(Data_dist,method="ward")

# reduced label size
par(cex=0.7, mar=c(5, 8, 4, 1))
plot(hc, xlab="", ylab="", main="", sub="", axes=FALSE)
title(xlab="", ylab="", main="Cluster analysis")

The cluster output:
[cid:D57BB82B-3ACF-4681-BCA8-D8202EA34294 at eduroam.net.au.dk]
Kind regards

Gitte Brinch Andersen

Ph.d student
Department of Biomedicine
Wilhelm Meyers Allé 4
Aarhus Universitet
DK-8000 Aarhus C

E-mail: gitteba at hum-gen.au.dk<mailto:gitteba at hum-gen.au.dk>

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