similar to: Package "prabclus" not available?

Dear list, I want to update my prabclus package which I haven't done for quite a while. In the previous version, I had .dat files in my data subdirectory, which I read using .R files. Now R CMD check gives me a warning that .dat files are no longer accepted there. So I changed my filenames to .txt, but actually some of these files are only there in order to be read by .R, not in order

Hi list, is there any direct way to obtain confidence intervals for the regression slope from lm, predict.lm or the like? (If not, is there any reason? This is also missing in some other statistics softwares, and I thought this would be quite a standard 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...

Hi there, is there any R-function for k-nearest neighbour agglomerative hierarchical clustering? By this I mean standard agglomerative hierarchical clustering as in hclust or agnes, but with the k-nearest neighbour distance between clusters used on the higher levels where there are at least k>1 distances between two clusters (single linkage is 1-nearest neighbour clustering)? Best regards,

Dear list, R CMD check on my updated package now generated the following error: "LaTeX errors when creating DVI version. This typically indicates Rd problems." But the Rd files (and everything else) were checked as "OK" (I removed the problem about which I asked the list some hours ago, but answers are still appreciated because I rather created a rough workaround than

Dear listers, I just run R CMD check on an update of one of my packages. All seems fine but after having gone through all the Rd-file and example checking and so on, I get the following kind of errors: LaTeX errors when creating PDF version. This typically indicates Rd problems. LaTeX errors found: ! Font T1/ptm/m/n/10=ptmr8t at 10.0pt not loadable: Metric (TFM) file not found . <to be read

Hi there, it seems that if I update R, it doesn't find previously installed packages anymore and is also not found by ESS. Actually the update has been done by our system administrator who assumed that there would be no problems with these things (I don't have root access to this system) and will perhaps not be too keen on installing everything else again. Is there any simple way how

Dear list, I came across the following error for three of my newly written Rd-files: non-ASCII input and no declared encoding I can't make sense of this. Below I copied in one of the three files. Can anybody please tell me what's wrong with it? Thank you, Christian \name{tetragonula} \alias{tetragonula} \alias{tetragonula.coord} \docType{data} % \non_function{} \title{Microsatellite

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

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?

Dear list, (also sent to Roger Bivand, but perhaps somebody of you can help me also) I am trying to use package spdep for fitting an SAR model with errorsarlm. However, I am not sure how to make a valid nb object out of my neighborhood. As far as I have seen, there is no documentation for nb.object. I have done the following: class(pschmid$nb) <- "nb" # pschmid is a prab object as

Hi I have a large dataset, containing a wide range of binary variables. I would like first of all to compute a jaccard matrix, then do a PCA on this matrix, so that I finally can do a hierarchical clustering on the principal components. My problem is, that I don't know how to compute the jaccard dissimilarity matrix in R? Which package to use, and so on... Can anybody help me? Alternatively

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 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

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

Hi there, are there any R-packages for computations required in sampling theury (such as confidence intervals under random, stratified, cluster sampling; I'd be partoculary interested in confidence intervals for the population variance, which is difficult enough to find even in books)? Thanks, Christian *** --- *** Christian Hennig University College London, Department of Statistical

Hi list, I'm updating my fpc package at the moment and will add some new functions. I learned that there should be print and summary methods for the key functions. The purpose of the summary methods seems to be to reduce the possibly incredibly complex information in the function's output and the print method (print.summary.foo) should print an overview of the result. But in some

Dear list, order(x,y,z) returns a permutation to order x, ties broken by y, remaining ties broken by z. (And so on.) What I'd like to do is order(X), where X is a matrix (or a list or data frame if necessary) of unspecified size, which orders X[,1], ties broken by X[,2], remaining ties broken by X[,3] and so on - without having to know and to write down how many columns X has. Any

Hi there, any explanation for this? > intToUtf8(66) Error in intToUtf8(66) : argument 'x' must be an integer vector > intToUtf8(c(66,55)) Error in intToUtf8(c(66, 55)) : argument 'x' must be an integer vector > intToUtf8(c(66,55),multiple=TRUE) Error in intToUtf8(c(66, 55)) : argument 'x' must be an integer vector Errr... 66 and c(66,55) are as integer vectorish

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 list, I did simulations in which I generated 10000 independent Bernoulli(0.5)-sequences of length 100. I estimated p for each sequence and I also estimated the conditional probability that a one is followed by another one (which should be p as well). However, the second probability is significantly smaller than 0.5 (namely about 0.494, see below) and of course smaller than the direct