similar to: New package: BiplotGUI

Hi, I am trying to create 3 mds plots: one with axis 1 vs axis 2, one with axis 2 vs axis 3, and one with axis 1 vs axis 3. When inputting my code, I only end up with one diagram and when inputting mdsg.mds$dims, the program returns 2 for 2 dimensions. How can I create the other two plots? Any help would be greatly appreciated, Calla Carbone The table I use is number of each taxa on each

Dear List, I am writing a custom panel function and xyplot method to plot the results of a procrustes analysis from the vegan package. I am having trouble getting the call to panel.arrows to work as I wish when conditioning. The attached file contains the function definitions for the xyplot method and the custom panel and prepanel functions I am using. This example, using data and functions from

Hello This is a simple question but I couldn't google an answer. In the procrustes function of the vegan package, one uses plot(procrustes_object, kind=2) to obtain a plot of the residual differences. For instance: data(varespec) vare.dist <- vegdist(wisconsin(varespec)) library(MASS) mds.null <- isoMDS(vare.dist, tol=1e-7) mds.alt <- isoMDS(vare.dist,

Dear All, I am using a Procrustes analysis to compare two NMDS ordinations for the same set of sites. One ordination is based on fish data, the other is based on invertebrate data. Ordinations were derived using metaMDS() from the {vegan} library as follows: fish.mds<-metaMDS(fish.data, distance="bray", k=3, trymax=100, wascores=TRUE, trace=TRUE, zero="add")

Hello, I haven't received a reply since I sent my last logs in, so I thought I'd ask again and update the thread.? I had trouble getting the server to work properly on dovecot 2.3.2 so I rebuilt the server back on 2.2.27.? I've got the quota enforcement itself working, but the warnings still fail to fire. ? I've attached logs with mail_debug=yes for the period from the send which

Hi,I'm wondering if anyone has run into this but I found out that I can't use Window's VPN connection and logon to Samba using Aliases. I can log into the server using the server's main NetBIOS name but I can't use any of the aliases. Whilst inside the network the aliases work fine.Any ideas on how to get around this?# Samba config file created using SWAT # from 192.168.1.200

Hi, I have come to my wits end again (lately, it's a very short trip). I have been trying to connect to Samba 3.0.21b but Windows keeps throwing up the logon dialog. I'm using "Map network drive" to try to mount this share. It seems the problem is only on the Windows side since I have tested the connection through the Unix account. Both user id and password work fine.

Hi, Problem: Out of the blue Vista on my laptop decides it doesn't want to mount a share over PPTP VPN connection. I can mount the share in the local network but I can't do it over VPN. When trying to access the server, using "net view \\172.16.1.71" it shows the error in the subject. Platform/Versions: OS: Sun Solaris 10 11/06 release Samba version:

Hello, Most of the work was done with dovecot 2.2.27 but I just upgraded to 2.3.2 and didn't see any change.? Some debug logs are below, is there something specific I could search them for? Sep 17 23:19:16 ezm11-pco dovecot: auth-worker(8299): Debug: Loading modules from directory: /usr/lib/dovecot/modules/auth Sep 17 23:19:16 ezm11-pco dovecot: auth-worker(8299): Debug: Module loaded:

Hello, we have a large data set of water quality data and want to identify influence variables or *why* different groups of data are different (in an explorative sense). We consider to use biplots, however there are only the common PCA-Biplots available in R (biplot.princomp). We consider to use transformations (log-type, x^a, Box-Cox), but are seeking for alternatives. Are there

Dear all, I was looking for methods in R that allow assessing the number of significant principal coordinates. Unfortunatly I was not very successful. I expanded my search to the web and Current Contents, however, the information I found is very limited. Therefore, I tried to write code for doing a randomization. I would highly appriciate if somebody could comment on the following approach.

I have a presence/absence matrix for which I create a distance matrix and then perform pco analysis on. /library(ecodist) table <- read.table("matrix.pa") dist <- dist(table, method = "euclidean", diag = FALSE, upper = FALSE) dist.pco <- pco(dist)/ When I plot the pco analysis of the distance matrix I want to be able to distinguish between certain characters, for

Hi, I have been trying to create a function to generate a Procrustes plot, generated from package "vegan" in lattice. standard vegan code as follows library(vegan) pro=protest(P1, P8, permutations=4999,choices=1:4) plot(pro) Now, here is the code for the function that I have failed to get to work properly. panel.procrustes=function(x,y) }Pro=protest(x,y,permutations=4999,choices=1:4)

Hi all, I wondered how I can get the translated, rotated and scaledmatrix in a procrustes analysis. This does not help: ############################## library (vegan) #defining the target matrix: a= cbind (c (1,2,3,4), c( 10,12,14,16)) #defining the matrix to be rotated: b= a; b[,2]= c(9,11,15,16) c=procrustes (a,b); g=fitted (c) # trying to get to the procrustes matrices: d= t

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)

I use rsync on an SSD which is slow at writing, but very fast at reading, so it is important to me to avoid writing data. I had hoped rsync would only write changes in files when using --inplace, but it seems not: # Make a 1 GB file $ perl -e 'print "x"x1000000000' > 1g # rsync it (as expected this costs 1 GB writes) $ ./rsync-3.1.0/rsync --progress --inplace -cva 1g 1g.copy

I am using the following code: library(lattice) data<-read.csv("data.csv") attach(data) fig<-xyplot(S_t~month|event, key = list(text=list(lab=c("Time to first CV event - Data", "Survival post first CV event - Model", "Survival post first MIA/CA event - Data",

An updated version of the package plink has been uploaded to CRAN. This is a major revision that now includes multidimensional models and methods. plink is a package for conducting unidimensional and multidimensional IRT-based test linking using separate calibration methods for multiple groups for single-format or mixed-format common items. The package supports sixteen IRT models and eleven

An updated version of the package plink has been uploaded to CRAN. This is a major revision that now includes multidimensional models and methods. plink is a package for conducting unidimensional and multidimensional IRT-based test linking using separate calibration methods for multiple groups for single-format or mixed-format common items. The package supports sixteen IRT models and eleven

Hello, I'd like to reproduce the standard biplot with pc.biplot=TRUE using xyplot in lattice in order to assign different symbols to groupings of observations (similar to the example in fig. 11.2 on page 285 in DAAG). In order to reproduce the biplots I need to know how to scale the observations and variables. In ?biplot.princomp I found that the variables are scaled by 'lambda ^