I am using some functions from package clusterSim to evaluate the best clusters
layout.
Here is the features vector I am using to cluater 12 signals:
> alpha.vec
[1] 0.8540039 0.8558350 0.8006592 0.8066406 0.8322754 0.8991699 0.8212891
[8] 0.8815918 0.9050293 0.9174194 0.8613281 0.8425293
In the following I pasted an excerpt of my program:
####################################################################
library(clusterSim)
setwd("C:/Documents and
Settings/Monville/SpAn-Tests/Signals-Classification-Dir/Classification-by-Signal-Dir")
## LOAD DONOHO ALPHA FILE
features.tab <- read.table("Signals-Alpha-and-Zero-Moments.txt",header=T)
## EXTRACT SIGNALS ID
insig <- features.tab[,"SignalID"]
## GENERATE DISTANCE MATRIX LABELS
rwn <- NULL
for(i in 1:length(insig)) {
rwn <- c(rwn,as.character(insig[i]))
}
## EXTRACT FEATURES VECTOR
alpha.vec <- features.tab[,"Signal_Donoho_Alpha"]
## CALCULATE DISTANCE MATRIX - EUCLIDEAN DISTANCE
## ATTACH SIGNAL LABELS
dist.mat <- dist(as.matrix(alpha.vec),method = "euclidean")
yy <- as.matrix(dist.mat)
rownames(yy) <- rwn
nc.min <- 2 #MINIMUM CLUSTERS NUM.
nc.max <- length(alpha.vec) -1 #MAXIMUM CLUSTERS NUM.
## --------------------------------- PAM - INDEX.G1
------------------------------------------
res <- array(0,c(nc.max - nc.min +1,2))
res[,1] <- nc.min:nc.max
clusters <- NULL
for (nc in nc.min:nc.max) {
cl <- pam(dist.mat,nc,diss=TRUE)
res[nc-nc.min+1,2] <- G1 <-
index.G1(as.matrix(alpha.vec),cl$cluster,d=dist.mat,centrotypes="medoids")
clusters <- rbind(clusters, cl$cluster)
}
###############################################################################
I get the following error whenever I use index.G1:
> nc <- 2
> cl <- pam(dist.mat,nc,diss=TRUE)
> cl
Medoids:
ID
[1,] 5 5
[2,] 9 9
Clustering vector:
[1] 1 1 1 1 1 2 1 2 2 2 1 1
Objective function:
build swap
0.01873272 0.01620992
Available components:
[1] "medoids" "id.med" "clustering" "objective" "isolation"
[6] "clusinfo" "silinfo" "diss" "call"
> ndex.G1(as.matrix(alpha.vec),cl$cluster,d=dist.mat,centrotypes="medoids")
Error: could not find function "ndex.G1"
> index.G1(as.matrix(alpha.vec),cl$cluster,d=dist.mat,centrotypes="medoids")
Error in centers[i, ] <- .medoid(x[cl == i, ], d[cl == i, cl == i]) :
number of items to replace is not a multiple of replacement length
Please, notice that the same code work if I call index.G2, index.G3, index.S
Whay it doesn't work with index.G1 ?
Thank you very much.
Maura
tutti i telefonini TIM!
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