search for: chrish

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2003 Dec 11
1
cutree with agnes
Hi, this is rather a (presumed) bug report than a question because I can solve my personal statistical problem by working with hclust instead of agnes. I have done a complete linkage clustering on a dist object dm with 30 objects with agnes (R 1.8.0 on RedHat) and I want to obtain the partition that results from a cut at height=0.4. I run > cl1a <- agnes(dm, method="complete")
2003 Dec 11
1
cutree with agnes
Hi, this is rather a (presumed) bug report than a question because I can solve my personal statistical problem by working with hclust instead of agnes. I have done a complete linkage clustering on a dist object dm with 30 objects with agnes (R 1.8.0 on RedHat) and I want to obtain the partition that results from a cut at height=0.4. I run > cl1a <- agnes(dm, method="complete")
2008 Jun 13
3
cluster.stats
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?
2005 Sep 29
5
Regression slope confidence interval
...application.) I know that it's easy to implement 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
2006 Aug 09
2
R CMD check error
...rather created a rough workaround than solved it). 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
2010 Aug 06
1
Latex errors when checking package
...m/n/10=ptmr8t at 10.0pt not loadable: Metric (TFM) file not found . <to be read again> relax l.7 \begin{document} ! Font T1/ptm/m/n/24.88=ptmr8t 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.h...
2011 Jun 09
1
k-nn hierarchical clustering
...he higher levels where there are at least k>1 distances 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
2010 Apr 24
4
DICE Coefficient of similarity measure
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
2010 Oct 10
1
Package "prabclus" not available?
...ackage spdep on that platform in tests, but that shouldn'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
2001 Apr 21
2
wich samba i should use?
i need to logo on win2000 to a samba server... wich samba version i should use? where can i get it? tks very much _________________________________________________________________________ Get Your Private, Free E-mail from MSN Hotmail at http://www.hotmail.com.
2010 Sep 01
2
Rd-file error: non-ASCII input and no declared encoding
....fr/~rousset/Genepop.pdf} } \details{ Reads from 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
2005 Aug 08
2
selecting outliers
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
2006 Aug 18
2
R-update - what about packages and ESS?
...enever I updated R on my private computers, I installed 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
2005 Aug 08
2
computationally singular
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
2012 Aug 21
1
R CMD build error with data files
...blems." ...with no useful hint what the problemn 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
2005 Aug 03
4
R CMD build error
Dear list, I try to update the prabclus package. R CMD check works nicely, no warnings, good results in all tests. However, building the package fails: ginkgo:/disk5/home/chrish/RAusw/libsrc R CMD build prabclus * checking for file 'prabclus/DESCRIPTION' ... OK * preparing 'prabclus': * checking whether 'INDEX' is up-to-date ... OK * removing junk files * building 'prabclus_2.0-1.tar.gz' tar: prabclus/man/.#prabinit.Rd: Cannot stat: No such...
2006 Aug 07
5
kmeans and incom,plete distance matrix concern
Hi there I have been using R to perform kmeans on a dataset. The data is fed in using read.table and then a matrix (x) is created i.e: [ mat <- matrix(0, nlevels(DF$V1), nlevels(DF$V2), dimnames = list(levels(DF$V1), levels(DF$V2))) mat[cbind(DF$V1, DF$V2)] <- DF$V3 This matrix is then taken and a distance matrix (y) created using dist() before performing the kmeans clustering. My query
2011 Aug 10
4
Clustering Large Applications..sort of
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
2005 Aug 17
1
Fitting mixture model
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
2006 Apr 30
1
Number of Clusters
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