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...t but it's for explanation to people who faint if they have to do their own programming... Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 chrish at stats.ucl.ac.uk, www.homepages.ucl.ac.uk/~ucakche

Dear list, I just tried to use the function cluster.stat in the package fpc. I just have a couple of questions about the syntax: cluster.stats(d,clustering,alt.clustering=NULL, silhouette=TRUE,G2=FALSE,G3=FALSE) 1) the distance object (d) is an object obtained by the function dist() on my own original matrix? 2) clustering is the clusters vector as result of one of the many clustering methods?

...at 24.88pt not loadable: Metric (TFM) file not f ound. <to be read again> (and similar ones) l.18 ...ian Hennig \email{chrish at stats.ucl.ac.uk}} ! \textfont 0 is undefined (character h). \Url at FormatString ...\Url at String \UrlRight \m at th $ l.41 ...http://www.homepages.ucl.ac.uk/~ucakche/}} ! \textfont 0 is undefined (character t). \Url at FormatString ...\Url at String \UrlRight \m at th $ l.41 ...http://www.homepages.ucl.ac.uk/~ucakche/}} ! \textfont 0 is undefined (character t). \Url at FormatString ...\Url at String \UrlRight \m at th $ (...and lots of further ones that lo...

...What can I do to get better information about what caused the problem in my Rd files? Best, Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 chrish at stats.ucl.ac.uk, www.homepages.ucl.ac.uk/~ucakche

...ouldn't affect using it on Linux, or should it?) Any explanation? Thanks and best wishes, Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 chrish at stats.ucl.ac.uk, www.homepages.ucl.ac.uk/~ucakche

...tances between two clusters (single linkage is 1-nearest neighbour clustering)? Best regards, Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 chrish at stats.ucl.ac.uk, www.homepages.ucl.ac.uk/~ucakche

...example data file \code{Heterotrigona_indoFO.txt}. } \examples{ data(tetragonula) } \keyword{datasets} *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 chrish at stats.ucl.ac.uk, www.homepages.ucl.ac.uk/~ucakche

Hi everybody, I'd like to know if there's an easy way for extracting outliers record from a dataset, in order to perform further analysis on them. Thanks Alessandro

...led everything else again as well - but that's certainly not everybodies taste... Best, Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 chrish at stats.ucl.ac.uk, www.homepages.ucl.ac.uk/~ucakche

Hi, I have a dataset which has around 138 variables and 30,000 cases. I am trying to calculate a mahalanobis distance matrix for them and my procedure is like this: Suppose my data is stored in mymatrix > S<-cov(mymatrix) # this is fine > D<-sapply(1:nrow(mymatrix), function(i) mahalanobis(mymatrix, mymatrix[i,], S)) Error in solve.default(cov, ...) : system is computationally

Dear Listers, I emailed the list a few days ago about how to bootstrap a community matrix (species by sites) and get a consensus tree with node support. A friend pointed out that a similar question remained unanswered in 2004. I wish to re-word my question: is anyone aware of a package / method to obtain a majority-rule consensus tree from x distance matrices ? Is anyone using R to generate

Hi, I wanted the DICE coefficient (similarity measure for binary variables) to be calculated in R and found that the "igraph" package has the option of "similarity.dice" to do this. But, for this command, the input object should be an igraph object. But, I have a dataframe of columns containing 1's and 0's. Can I convert this dataframe into an igraph object, so that

...n may be whatsoever. If anyone has an idea how to find the problem, please tell me! Thanks, Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 chrish at stats.ucl.ac.uk, www.homepages.ucl.ac.uk/~ucakche

Hello all, I am using the clustering functions in R in order to work with large masses of binary time series data, however the clustering functions do not seem able to fit this size of practical problem. Library 'hclust' is good (though it may be sub par for this size of problem, thus doubly poor for this application) in that I do not want to make assumptions about the number of

I would like to fit a gaussian mixture model to a vector with about 50,000 points. I have tried using Mclust to do so, but 50,000 points requires more memory than I have (and I am running with 4Gb). Any other suggestions for how to do so? Oh, I don't know the number of components, but the number will likely be less than 5 or 6. Thanks, Sean

Dear R users, I am interested in clustering in R. In SAS we have some criteria for determining the number of clusters using the PROC CLUSTER procedure, which are "CCC" cubic clustering criterion (Sarl 1981), Psuedo F (PSF), and Psuedo T square (PST). My question is do thsese criterion exists in R, I tried to search and got one hit (BIC) in Mclust, which I am aware of, any input is

...tion of the function. Is there any reason to implement a summary method in these cases? Best, Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 chrish at stats.ucl.ac.uk, www.homepages.ucl.ac.uk/~ucakche

...gs occurr.) Is it forbidden to use \itemize inside of \argument? What went wrong here? Best, Christian *** --- *** Christian Hennig University College London, Department of Statistical Science Gower St., London WC1E 6BT, phone +44 207 679 1698 chrish at stats.ucl.ac.uk, www.homepages.ucl.ac.uk/~ucakche

Dear All, a long time ago I ran a cluster analysis where the dissimilarity matrix used consisted of Dmax (or Kolmogorov-Smirnov distance) values. In other words the maximum difference between two cumulative proportion curves. This all worked very well indeed. The matrix was calculated using Dbase III+ and took a day and a half and the clustering was done using MV-ARCH, with the resultant

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,