Plotting results for soft clustering
This function visualises the clusters
produced by mfuzz.
mfuzz.plot(eset,cl,mfrow=c(1,1),colo,min.mem=0,time.labels,new.window=TRUE)
eset |
object of the classExpressionSet. |
cl |
object of class flclust. |
mfrow |
determines splitting of graphic window. |
colo |
color palette to be used for plotting. If the color argument remains empty, the default palette is used. |
min.mem |
Genes with membership values below
|
time.labels |
labels can be given for the time axis. |
new.window |
should a new window be opened for graphics. |
The function generates plots where the membership of genes is color-encoded.
Matthias E. Futschik (http://www.sysbiolab.eu/matthias)
if (interactive()){
data(yeast)
# Data pre-processing
yeastF <- filter.NA(yeast)
yeastF <- fill.NA(yeastF)
yeastF <- standardise(yeastF)
# Soft clustering and visualisation
cl <- mfuzz(yeastF,c=20,m=1.25)
mfuzz.plot(yeastF,cl=cl,mfrow=c(2,2))
# display of cluster cores with alpha = 0.5
mfuzz.plot(yeastF,cl=cl,mfrow=c(2,2),min.mem=0.5)
# display of cluster cores with alpha = 0.7
mfuzz.plot(yeastF,cl=cl,mfrow=c(2,2),min.mem=0.7)
}Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.