similar to: cluster/distance large matrix

Hello, I want to use pearson's correlation as distance between observations and then use any centroid based linkage distance (ex. Ward's distance) When linkage distances are formed as the Lance-Williams recursive formulation, they just require the initial distance between observations. See here: http://en.wikipedia.org/wiki/Ward%27s_method It is said that you have to use euclidean

Dear R-Help-Team, I would like to cluster my data using the ward-method. In several papers I read (e.g. Bahrenberg) that it is neccesary to use the "squared euclidean distance" with the ward-method. Unfortunatelly I cannot find this term in r as a method for measuring the distance. Does anybody have an idea? Thanks in advance, Carolin [[alternative HTML version deleted]]

I''ve been using Puppet now for a month or so and I''ve come to a problem that may warrant an additional Puppet metaparameter. I''m advocating the addition of a metaparameter called "preaction" (or something like that), which will perform some arbitrary action before the resource is modified. There may be a way to do this within Puppet already (with some

Dear List, is there an elegant (or even not elegant) way how to transform dissimilarity or distance matrix A (or, in general, arbitrary symmetrical matrix) by transposition of rows and columns into a form closest to "block diagonal" matrix B? The matrix A is adjusted the following way A[A<epsilon] <-0 #(epsilon is given "small" number) B: (in its ideal form)

I have two samba DCs (4.0.9) and no Windows DCs, and group policy is failing. I've narrowed it down to an error accessing the sysvol folder. Some clients (not all clients) get the error "Element not found" when connecting to our sysvol folder which is "\\ahc.pdc\sysvol\". The problem seems to be intermittent, a client may suddenly start working again, or suddenly stop.

Hi, I want to know which distance is using in the function kmeans and if we can change this distance. Indeed, in the function pam, we can put a distance matrix in parameter (by the line "pam<-pam(dist(matrixdata),k=7)" ) but we can't do it in the function kmeans, we have to put the matrix of data directly ... Thanks in advance, Nicolas BOUGET

Hi, I am trying to calculate a distance matrix on a binary data frame using dist.binary() {ade4}. This is the code I run and the error I get: > sjlc.dist <- dist.binary(as.data.frame(data), method=2) #D = (a+d) / (a+b+c+d) Error in if (any(df < 0)) stop("non negative value expected in df") : missing value where TRUE/FALSE needed I don't know if the problem are the

hello, i'd be happy if someone could provide help with the following problem: i have a dist.matrix that comes from vegdist() function of the vegan package. the used method = "horn" is not accepted as argument in hvcluster(...,dist.method="..."). is there a way to incorporate the method "horn" in hvcluster()? thanks in advance! yours, kay -- View this

Hi, We're setting up a PDC, and would like to have a login script to deliver the mapped drives to users in particular groups, and connect to printers. The printer drivers come from the [print$], share. Does anyone have any good resources for this? What's the easiest and simplest thing to get going --vbscript or batch files? Thanks, chris

Hi the list, I need to compute Gower distance between a specific individual and all the other individual. The function DAISY from package cluster compute all the pairwise dissimilarities of a population. If the population is N individuals, that is arround N^2 distances to compute. I need to compute the distance between a specific individual and all the other individual, that is only N

Hey Everyone! I wanted to carry out Hierarchical clustering using distance matrices i have calculated ( instead of euclidean distance etc.) I understand as.dist is the function for this, but the distances in the dendrogram i got by using the following script(1) were not the distances defined in my distance matrices. script: var<-read.table("the distance matrix i calculated",

I try to perform a clustering using an existing dissimilarity matrix that I calculated using distance (analogue) I tried two different things. One of them worked and one not and I don`t understand why. Here the code: not working example library(cluster) library(analogue) iris2<-as.data.frame(iris) str(iris2) 'data.frame': 150 obs. of 5 variables: $ Sepal.Length: num 5.1 4.9 4.7

Dear All, I am in the somewhat unfortunate position of having to reproduce the results previously obtained from (non-metric?) MDS on a "kinship" matrix using Statistica. A kinship matrix measures affinity between groups, and has its maximum values on the diagonal. Apparently, starting with a nxn kinship matrix, all it was needed to do was to feed it to Statistica flagging that the

I am trying to use the cca/rda/capscale functions in vegan to analyse genetic distance data ( provided as a dist object calculated using dist.genpop in package adegenet) with geographic distance partialled out ( provided as a distance object using dist function in veganthis method is attempting to follow the method used by Geffen et al 2004 as suggested by Legendre and . FORTIN (2010). I

Hi folks, I''m overriding some resource attribute in a subclass. It seems that specifying a resource by its alias doesn''t work in a subclass. Looks like a bug, no ? === module-classes.pp === class module::base { file {"/tmp/test-module": alias => test-module, content => "module::base", } } class

Hi All, I have a question which does not pertain directly to the use of R but comes from my use of R! I have data which can be described as 3-dimensional e.g. (x,y,z), with no negative component. The suggested way to analyze this data is via multivariate techniques or by calculating what amounts to a levene's test on the data and then an ANOVA on the three components if the first test is

Hi everyone, I want to create my own distance measure, other than 'euclidean' or 'manhatan', to use in cluster pckgs. To do this I think that I need to change dist(), in mva pckg, or daisy(), in cluster pckg. (or is there a cleaver way ?) But this functions are in fact things like: .Fortran( "daisy", ... ) or .C("dist",...). I tried unsuccessfully to find

Hi, I''m testing puppet from the subversion trunk. I have a rather hacked-together system to install a CRM into one of my nodes, which worked (more or less) with version 0.19.3. When I tried to do a puppet run on a completely clean node it seemed to stall on the ''compilation'' part (I do an exec of ''perl Makefile.PL'' in the appropriate dir). When I broke

Hello all, There''s a great patch in trac that fixes a lof of issues with the date helpers. I''m afraid it hasn''t had any attention yet. http://dev.rubyonrails.org/ticket/3811 This fixes all the little date_helper problems, except one: When you choose an invalid date ActiveRecord throws an ActiveRecord::MultiparameterAssignmentErrors. This used to work in 1.0,

Hi, All my controllers in subdirectories aren''t reachable by the normal urls anymore since my upgrade to 1.1.3. 404 errors. Did anybody else experience this? grtz Thijs -- Posted via http://www.ruby-forum.com/.