similar to: Bootstrapped eigenvector

G'Day R users! Following an ordination using prcomp, I'd like to test which variables singnificantly contribute to a principal component. There is a method suggested by Peres-Neto and al. 2003. Ecology 84:2347-2363 called "bootstrapped eigenvector". It was asked for that in this forum in January 2005 by J?r?me Lema?tre: "1) Resample 1000 times with replacement entire

Hi all I?m trying to tests the significance of loadings from a ordination of 46 variables (caategorical, ordinal and nominal). I used dudi.mix from ade4 for the ordination. A years ago Jari Oksanen wrote this script implementing Peres-Neto et al. 2003 (Ecology) bootstraping method: netoboot <- function (x, permutations=1000, ...) { pcnull <- princomp(x, cor = TRUE, ...) res

Dear all, I've used the 'prcomp' command to calculate the eigenvalues and eigenvectors of a matrix(gg). Using the command 'principal' from the 'psych' package  I've performed the same exercise. I got the same eigenvalues but different eigenvectors. Is there any reason for that difference? Below are the steps I've followed: 1. PRCOMP #defining the matrix

Dear All i have a little puzzle about eigenvector in the R. As we know that the eigenvector can be displayed on several form. For example A=matrix(c(1,2,4,3),2,2) if we want to get the eigenvalue and eigenvector, the code followed eigen(A) $values [1] 5 -1 $vectors [,1] [,2] [1,] -0.7071068 -0.8944272 [2,] -0.7071068 0.4472136 however, we also can calculate the vector matrix

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

Hi, If I use the eigen() function to find the eigenvalues of a matrix, how can I find the eigenvector corresponding to the largest eigen value? Thanks! [[alternative HTML version deleted]]

Hello all, I was wondering if there is a function in R that only computes the eigenvector corresponding to the largest/smallest eigenvalue of an arbitrary real matrix. Thanks Minh -- Living on Earth may be expensive, but it includes an annual free trip around the Sun.

Hi All, I'd like to build a package for the community that replicates the output produced by SAS "proc varclus". According to the SAS documentation, the first few steps are: 1. Find the first two principal components. 2. Perform an orthoblique rotation (quartimax rotation) on eigenvectors. 3. Assign each variable to the rotated component with which it has the higher squared

Dear all I am so glad the R can provide the efficient calculate about eigenvector and eigenvalue. However, i have some puzzle about the procedure of eigen. Fristly, what kind of procedue does the R utilize such that the eigen are obtained? For example, A=matrix(c(1,2,4,3),2,2) we can define the eigenvalue lamda, such as det | 1-lamda 4 | =0 | 2 3-lamda | then

Hi. I have been looking at the PCAproj function in package pcaPP (R 2.4.1) for robust principal components, and I'm trying to interpret the results. I started with a data matrix of dimensions RxC (R is the number of rows / observations, C the number of columns / variables). PCAproj returns a list of class princomp, similar to the output of the function princomp. In a case where I can

Hi to all, I have two graphs with the same number of nodes but with different connectivities and also with a different number of clusters. The two graphs represent the same "system" under different "conditions" and then there is a one-to-one correspondence between a given node in the two graphs. It is correct to use the eigenvector centrality score as a measure of the relevance

Hi everybody, I need help in writing a statistical function for bootstrap. Suppose m is a matrix with n cols and p rows, my original data. What I want to do is a bootstrap (using boot from package boot) on eigenvectors from a PCA done on m with a statistic function calculating the eigenvector bootstrap error ratio. If R = number of bootstrap replicates, then my function should look something

Hello everybody ! I try to obtain in R eigenvectors and canonical analysis on MANOVA results, but I don't find how to process? In particular, I would be interesting to obtain "standardized canonical coefficients" of the canonical variates. There analysis give some information on the correlation between response variates. My data are organised in 2 terms (one is continu, one is a

Dear R users & Experts, This is just a curiousity, I was wondering why the dominant eigenvetor and eigenvalue of the following matrix is given as the third. I guess this could complicate automatic selection procedures. 0 0 0 0 0 5 1 0 0 0 0 0 0 1 0 0 0 0 0 0 1 0 0 0 0 0 0 1 0 0 0 0 0 0 1 0 Please

Some of you may have seen a message on s-news by Stefan Steinhaus regarding his paper on "Comparison of mathematical programs for data analysis". He compares S-PLUS 4.5 with several other programs. He does not include R in the comparisons. On p. 28 of his report he gives the URL the Auckland site along with URL's for two other systems but comments that "I didn't received

Hey, All In principal component analysis (PCA), we want to know how many percentage the first principal component explain the total variances among the data. Assume the data matrix X is zero-meaned, and I used the following procedures: C = covriance(X) %% calculate the covariance matrix; [EVector,EValues]=eig(C) %% L = diag(EValues) %%L is a column vector with eigenvalues as the elements percent

x=rmvnorm(2000, rep(0, 6), diag(c(5, rep(1,5)))) x=scale(x, center=T, scale=F) pc <- princomp(x) biplot(pc) There are a bunch of red arrows plotted, what do they mean? I knew that the first arrow labelled with "Var1" should be pointing the most varying direction of the data-set (if we think them as 2000 data points, each being a vector of size 6). I also read from

Hi ... Please could you help with probably a very simple problem I have. I'm completely new to R and am trying to follow a tutorial using R for Force Distribution Analysis that I got from ... http://projects.eml.org/mbm/website/fda_gromacs.htm. Basically, the MDS I preform outputs a force matrix (.fm) from the force simulation I perform. Then, this matrix is read into R and prcomp is

In comparing the results of princomp and prcomp I find: 1. The reported standard deviations are similar but about 1% from each other, which seems well above round-off error. 2. princomp returns what I understand are variances and cumulative variances accounted for by each principal component which are all equal. "SS loadings" is always 1. 3. Same happens

Dear Friends, I'm trying to learn to how to get Bootstrapped standard errors for estimated coefficients from a regression. For instance suppose I have the following model logitmodel <- glm (y~X1+X2+X3, family=binomial(link="logit")) beta <- logitmodel$coef can somebody please guide me on how to use the package boot to obtain bootstrapped SE's for the associated betas.