Estimate for optimal fuzzifier m
This function estimates an optimal setting of fuzzifier m
mestimate(eset)
eset |
object of class “ExpressionSet” |
Schwaemmle and Jensen proposed an method to estimate of m, which was motivated by the evaluation of fuzzy clustering applied to randomized datasets. The estimated m should give the minimum fuzzifier value which prevents clustering of randomized data.
Estimate for optimal fuzzifier.
Matthias E. Futschik (http://itb.biologie.hu-berlin.de/~futschik)
Schwaemmle and Jensen, Bioinformatics,Vol. 26 (22), 2841-2848, 2010
if (interactive()){
data(yeast)
# Data pre-processing
yeastF <- filter.NA(yeast)
yeastF <- fill.NA(yeastF)
yeastF <- standardise(yeastF)
#### parameter selection
#### parameter selection
# For fuzzifier m, we could use mestimate
m1 <- mestimate(yeastF)
m1 # 1.15
cl <- mfuzz(yeastF,c=20,m=m1)
mfuzz.plot(yeastF,cl=cl,mfrow=c(4,5))
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