similar to: malecot migration matrix

[ This was posted to the R-packages list (which I moderate), but definitely doesn't belong there. Martin Maechler ] ------- start of forwarded message ------- From: Federico Calboli <f.calboli at ucl.ac.uk> To: r-packages at stat.math.ethz.ch Subject: how to upload Date: 15 Jul 2004 18:30:26 +0100 Dear All, I just finished a add on lib called Malmig, to calculate Malecot

Dear All, how do I compute the left eigenvector of a matrix? I gather that "eigen" computes the right eigenvectors... Regards, Federico Calboli -- ================================= Federico C. F. Calboli PLEASE NOTE NEW ADDRESS Dipartimento di Biologia Via Selmi 3 40126 Bologna Italy tel (+39) 051 209 4187 fax (+39) 051 251 208 f.calboli at ucl.ac.uk

Dear All, I would like to ask how to get the Sum of Squares from fitted lme model. I appreciate that lme maximises the likelihood (or REML) and uses likelihood ratio tests, but I just fail why I could not get the SS if I want them. I could use lm to calculate them, but it looks quite pointless to fit a second (and wrong in a way) model for something so trivial. I know that the issue has been

Check out textplot in the gregmisc package ... Federico Calboli <f.calboli@ucl.ac.uk> Sent by: r-help-bounces@stat.math.ethz.ch 07/13/2004 12:06 PM Please respond to f.calboli To: r-help <r-help@stat.math.ethz.ch> cc: Subject: [R] plotting a table together with graphs Dear All, I would like to ask how to add a table to a

Dear All, I would like to ask how to customize the graph corresponding to a procrustes analysis. I have to distance matrices, that I transform to two set of coordinates by means of muti dimensional scaling: library(mva) c1<-cmdscale(mat.dist1) c2<-cmdscale(mat.dist2) I vant to rotate c2 on c1, and I use the "procrustes" analysis from the {vegan} library. library(vegan)

Dear All, I apologize if the following has been already asked, but I could not find anything in the archives. I am running Debian Sid (on an Athlon XP), with R 1.8.1.cvs.20040307-1 (it describes itself as "R 1.9.0 experimental" when I fire R up) and I am unable to load the library "nlme" (I apt-getted r-recommended, so the library is on the system) >library(nlme) Error in

How about this: > expm function(x,pow=2) { xd <- diag((eigen(x)$values^pow)) xm <- eigen(x)$vector %*% xd %*% t(eigen(x)$vector) return(xm) } > xa [,1] [,2] [1,] 2 1 [2,] 1 3 > expm(xa,pow=3) [,1] [,2] [1,] 15 20 [2,] 20 35 > xa %*% xa %*% xa [,1] [,2] [1,] 15 20 [2,] 20 35 > From: Federico Calboli <f.calboli at ucl.ac.uk>

Dear all, I would like to ask you the following: I have data about different manuscripts, together with data about the presence/absence of copying errors, in the days when manuscript were really manuscripts. I would ideally like to use the data to draw a phylogenetic tree, so that I can infer which ms was copied from which. The error presence/absence is coded in binary format. The plan is to use

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

> -----Original Message----- > From: Federico Calboli > Sent: Tuesday, January 20, 2004 5:40 PM > To: r-help > Subject: [R] matrix exponential: M^0 > > I would like to ask why the zeroeth power of a matrix gives me a matrix > of ones rather than the identity matrix: > > > D<-rbind(c(0,0,0),c(0,0,0),c(0,0,0)) > > D<-as.matrix(D) > > D >

Dear all, I am putting together a business case for R and I would like to know if there exist statistics on the distribution of R in academia, research and commercial institutions. The same information about S-plus would be welcome. Please reply only if you have consistent and certain information. Thank you very much, giovanni

I am using a two-factor ANOVA model with random factor effects including the interaction, i.e. the factors are crossed. I would like to be able to generate all four variance components along with approximate confidence intervals using the NLME package. However, I do not know how to specify the random option because of two problems. First, I do not know how to enter the interaction term into the

Dear all, We compared the gene expression level in two conditions: high (H) and low (L), using real-time PCR. We had 3 samples of each condition, and we quantified each sample twice (i.e. a technical replication). Our data looks like: H1 H1 H2 H2 H3 H3 L1 L1 L2 L2 L3 L3 We want to test if the level in H vs L is significantly different. I would like to use ANOVA and I guess a nested model with

Hello everybody, I'm seeing some strange behavior on R 1.8.1 on Intel/Linux compiled with gcc 3.2.2. The p-value calculated from the chisq.test function is incorrect for some input values: > chisq.test(matrix(c(0, 1, 1, 12555), 2, 2), simulate.p.value=TRUE) Pearson's Chi-squared test with simulated p-value (based on 2000 replicates) data: matrix(c(0, 1, 1,

I use linux debian testing for which the latest debianized version of R is 1.8.1. Therefore I installed: r-base-core_1.8.1-0.cran.1_i386.deb r-base-dev_1.8.1-0.cran.1_all.deb r-base-html_1.8.1-0.cran.1_all.deb r-base-latex_1.8.1-0.cran.1_all.deb r-base_1.8.1-0.cran.1_all.deb r-doc-html_1.8.1-0.cran.1_all.deb r-doc-info_1.8.1-0.cran.1_all.deb

Dear all, I found the following on R 2.3.1. for Windows XPpro SP2, tested on 2 PCs AMD 64 3700+, Ati 9700 AMD Athlon 2400+, Matrox G550 Do the following: x <- as.matrix(0); fix(x) pasting a big chunk of data, for instance the one below, into a cell of the editor will crash the RGui. 333333333333333333 333333333333333333333333333 33333333333333333333333333333333333333333333

Dear all, it looks like that something is wrong with the /bin/windows/base/rpatched.html page as it seems pointing to the 2.8.1rc version. Also, I do not know if it is relevant but notice the dates of the following files on ftp://ftp.stat.math.ethz.ch/Software/CRAN/bin/windows/base/ R-2.8.1pat-win32.exe 31963 KB 22/12/2008 16.15.00 R-2.8.1rc-win32.exe 31991 KB 25/12/2008 9.30.00 thank

Dear all, following the thread http://tolstoy.newcastle.edu.au/R/e2/devel/07/09/4338.html regarding the bug in the partial autocorrelation function for multivariate time series. I have prepared a web page with patches and relevant information. http://www2.stat.unibo.it/giannerini/R/pacf.htm Please do not hesitate to contact me for further clarifications regards Simone --

According to ?parCapply: parRapply and parCapply always return a vector. This appears not to be the case in the following minimal reproducible example: > library(parallel) > nslaves <- 2 > cl <- makeCluster(nslaves) > X <- matrix(2,nrow=3,ncol=4) > X <- rbind(c(1,1,0,1),X) > tv <- parCapply(cl,X,FUN=function(x){ +

Together with Alessio Boattini of the University of Bologna we have created a package called Biodem. Biodem provides a number of functions for Biodemographycal analysis, and we hope it will be useful to the anthropological community. Because Biodem contains all the functions found in Malmig (a package I maintain), I would like to orphan it, or, even better, have it removed from CRAN. Finally,