similar to: cluster results using fanny

Dear All, I am attempting to use the FANNY fuzzy clustering function in R (Kaufman & Rousseeuw, 1990), found in the "cluster" package. I have run into a variety of difficulties; the two most crucial difficulties are enumerated below. 1. Where is the 'm' parameter in FANNY? In _Finding Groups in Data: An Introduction to Cluster Analysis_ (1990) by Kaufman & Rousseeuw,

Full_Name: Guan-Hua Huang Version: 2.0.1 OS: Linux Submission from: (NULL) (140.113.114.123) I install the package cluster by using install.packages("cluster"). After install it, it runs fine for function clara, but it does not work for function fanny. I did the following things: library(cluster) set.seed(21) x <- rbind(cbind(rnorm(10, 0, 0.5), rnorm(10, 0, 0.5)),

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)

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 All, My R version: 2.0.1 ; OS using: Linux. I install the package cluster by using install.packages("cluster"). After install it, it runs fine for function clara, but it does not work for function fanny. I did the following things: library(cluster) set.seed(21) x <- rbind(cbind(rnorm(10, 0, 0.5), rnorm(10, 0, 0.5)),cbind(rnorm(15, 5, 0.5), rnorm(15, 5, 0.5)),cbind(rnorm(

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

Hello List, My question is an elementary one. I have run a fuzzy kmeans cluster using FANNY to group freshwater fish assemblages. I then went in the field to validate that classification and have retrieved new assemblage data for a new suite of streams. Therefore I would like to use Predict to determine how well the original clustering fits the new data. However I have not figured out a

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),

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

Hello, I'm suffering a estrange problem in a WinNT-Samba3 environment. I have two servers: WinNT4 (PDC of domain A-DOMAIN) and Samba3 (PDC of B-DOMAIN). A-DOMAIN and B-DOMAIN trust each other (I had followed the procedures described in HOWTO Chapter 16 successfully). The problem arises when I assign permission in WinNT server's folders (A-DOMAIN) for users in the Samba domain (B-DOMAIN).

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

Dear R-list members, I am using the cluster package and by the generation of plot.partition I ran into the problem that an alternative title overlaps the default title. > plot.partition(clara.14,which.plot=2,stand=TRUE, main="Silhouette plot of 14 clusters") The manual states that all optional arguments for clusplot.default may also be supplied to plot.partition(). Altering the

I was trying to create a multi-color silhouette plot (each cluster a different color) from clusters created by trimkmeans. This works straighforwardly on an object created from pam however my colors are interwoven when I try the same approach on clusters from trimkmeans. I also tried sorting the silhouette object using sortSilhouette which did not solve the problem. If anyone has a suggestion,

I have "small" problem ... with the cluster library each time I try to use the "agnes","pam","fanny" functions with more than 20000 elements I get the following error: >Error in vector("double", length) : negative length vectors are not allowed >In addition: Warning message: >NAs introduced by coercion But with the clara

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Hi! >library(cluster) In this lib a function called silhoutte.default is defined than on the R prompt it type >silhouette.default Error: Object "silhouette.default" not found R1.9.0 The same error are at R1.8.1 And I knew that a function silhoutte.default are present. But the same piece of code works in R1.6.2 ??? Eryk Dipl. bio-chem. Eryk Witold Wolski @

Hi dear all It's the first time for me to install a developmental version of R, I came across following errors, my system is DISTRIB_ID=Ubuntu DISTRIB_RELEASE=10.04 DISTRIB_CODENAME=lucid DISTRIB_DESCRIPTION="Ubuntu 10.04.1 LTS" I downloaded the dev version of R in cran R source, and downloaded the recommended packages by using wget as described in R manual, and run

Hallo Sebastian, >>>>> "SP" == Sebastian P?lsterl <sebp at k-d-w.org> >>>>> on Sun, 14 Jun 2009 14:04:52 +0200 writes: SP> Hello Martin, SP> I plotting the silhouette of a clustering and storing it as png. When I SP> try to store the image as png the bars are missing. The bars are plotted SP> when I use x11 or

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

Hello everyone. I just started learning R for clustering analysis in my research project. I tried k-means method and PAM method, both of which were properly processed with my data. I have some questions about PAM graphical output. Suppose to do the commands shown below; pm<-pam(D, 6) plot(pm) I got two charts after prompted. In the first chart, 6 oval clusters are drawn together