similar to: silhouette fuzzy

hello, i'm pete ,how can i order rows of matrix by max to min value? I have a matrix of membership degrees, with 82 (i) rows and K coloumns, K are clusters. I need first and second largest elements of the i-th row. for example 1 0.66 0.04 0.01 0.30 2 0.02 0.89 0.09 0.00 3 0.06 0.92 0.01 0.01 4 0.07 0.71 0.21 0.01 5 0.10 0.85 0.04 0.01 6 0.91 0.04 0.02 0.02 7 0.00 0.01 0.98 0.00 8 0.02

Hi list, When I was using 'silhouette' from the 'cluster' package to calculate clustering performances, R crashed. I traced the problem to the fact that my clustering labels only have 2's and 3's. when I replaced them with 1's and 2's, the problem was solved. Is the function purposely written in this way so when I have clustering labels, "2" and

Dear all, I am trying (without much success) to use the fuction 'silhouette'. Would anyone encountered that before (or would know where I am wrong ?) Please find below the R ouput. Thanks in advance, L. > s <- silhouette(ct, as.dist(metric)) Error in "[<-"(*tmp*, iC, "sil_width", value = s.i) : number of items to replace is not a multiple of replacement

Dear R users, I am mailing you about the graphical output of silhouette (cluster package) From the example of silhouette in help(silhouette): > ar <- agnes(ruspini) > si3 <- silhouette(cutree(ar, k = 5), # k = 4 gave the same as pam() above + daisy(ruspini)) > plot(si3, nmax = 80, cex.names = 0.5) from which one may conclude that group 1 is composed by

Hello R-listers, I'm having trouble accessing "sub" objects ("attributes"?), e.g., "x$silinfo$avg.width" using the /get() /command; I'm using/ get()/ in a loop as illustrated in the following code: #FIRST MAKE CLUSTERS of VARYING k /for (i in 1:300){ assign(paste("x.",i,sep=""),pam(x,i)) #WORKS FINE }/ #NEXT, TAKE LOOK AT AVE.

I'm fairly new to the silhouette functionality in the cluster package, so apologize if I'm asking something naive. If I run the 'agnes(ruspini)' example from the silhouette section of the cluster package vignette, and assign colours to clusters, two clusters have what appear to be incorrect colours in the silhouette plot. library(cluster) data(ruspini) ar<- agnes(ruspini)

Hello all, This might have been fixed in later versions (I am using R1.7.0), r-help archive contains messages reporting similar problems but no reports of codes fixes. I have encountered a couple of problems using the silhouette function. one occurs when the clustering contains clusters composed of 1 element (Martin Maechler posted code few months ago that fixes a similar problem that occurs

#Mdarts is a matrix 2343x788 #frequencia is a vector 2343x1 # 9 in Mdarts[fri,frj] stands for my missing values which i want to replace by the value in the vector frequencia Mdarts<-t(matrix(scan("C:/GWS/CNB/dartg.txt"),ncol=nindT,nrow=nm, byrow=T)) frequencia <- matrix(scan("C:/GWS/CNB/freq.txt"),ncol=1) for (fri in 1:nindT){ for (frj in 1:nm){ Mdarts[fri,frj] <- if

Hi: I'm clustering a microarray dataset with a large # of samples. I would like your opinion on the best way to automatically determine the optimal # of clusters. Currently I am using the "cluster" package, clustering with "clara", examining the average silhouette width at various numbers of clusters. I'd like opinions on whether any newer packages offer

Dear All, I am using Silhouette to estimate the number of clusters in a microarray dataset. Initially, I used the iris data to test my piece of code as follows: library(cluster) data(iris) mydata<-iris[,1:4] maxk<-15 # at most 15 clusters myindex<-rep(0,maxk) # hold the si values for each k clusters mdist<-1-cor(t(mydata)) #dissimlarity

Dear all, I am a stata user and I am moving my first steps in R. I am dealing with a silly issue concerning looping over variables. I read previous posts on similar topics in the R help archive, but I did not find a solution. Here is my case: I run a simple bivariate linear regression saving the output in objects called: pd.memb.0, pd.memb.1, pd.memb.2, pd.memb.3 pd.memb.0 <- lm(E.fs.memb ~

Hello SpinDoctors, I am fairly new to prototype js framework. I love it. Have various Ajax -get calls... which work wonderful... Suddenly, realised that in one case I have to use ''post'' to overcome the limitation on URL length... Have changed the parameters to suit to ''post'' request, but nothing happens... need your help... function getOptionalGroups(key){

What fun. I don't often stoke up the boiler and actually compile open-source code, but here I am at the beginning of just such a joyous and wondrous adventure. I'm running the latest level of AIX (V5.3...V4.3 has been obsolete for at least, what, 5 years) and using the IBM compiler (xlc is similarly obsolete, from back when the compiler came with the O/S...oh, for the halcyon days of

Sure I will split it and put it in two patches. Give me few hours. I need to test those patches. Sirish On 4/19/2012 8:40 AM, Tom Stellard wrote: > On Wed, Apr 18, 2012 at 11:18:05PM -0500, Sirish Pande wrote: >> Hi, >> >> Here's a patch for Hexagon Packetizer for review. This patch does >> not yield any warnings. >> > Would it be possible to split this

Hi: I'm clustering a microarray dataset with a large # of samples. I would like your opinion on the best way to automatically determine the optimal # of clusters. Currently I am using the "cluster" package, clustering with "clara", examining the average silhouette width at various numbers of clusters. I'd like opinions on whether any newer packages offer

Dear R users, Just wondering how to extract clustered data in a file. More precisely after running any clustering algorithms, you get information about the clusterd vectors. I want to save that data after clustering is done in the same order as the clusters are produced. How can I do that After runining algorithms you get information which vectors are clustered. for example, after running pam you

Hello, In cluster analysis with cluster, how does one colour the silhouette plots ? For example in using pam. There seems to be some problem there. Everything else can be coloured. Thanks, A. Mani Member, Cal. Math. Soc

Hi, I am using code below to get a plot that will show me on the X axis the number of clusters and on the Y axis the cluster average widths. However I am getting this error: Error in summary(silhouette(cutree(d, x), dist(iris[, -5])))$si.summary : $ operator is invalid for atomic vectors the code I am using is: avgs<-sapply(1:20,function(x) summary(silhouette(cutree(d,x),

> Can you explain why you were unable to add a small unit test to the testsuite? This is the case I have. ****** r3 = memb(r1+#1) r4 = memb(r1+ #0) .. .. { p0 = r3 /* Should almost never emit this. */ p1 = r4 /* Should almost never emit this. */ .. .. p0 = or(p1, p0) ***** The CHECK tags I have are ; CHECK: [[IntReg0:r[0-9]+]]

Dear All, Is there any existing code for plotting silhouette for kmeans clustering results? Many thanks! Linda [[alternative HTML version deleted]]