similar to: 4th corner analysis ade4 - what do the colors mean

Un saludo R-inómanos: Les escribo porque tengo una duda que no he podido resolver por mis medios y actuales conocimientos. He querido instalar el paquete "ade4" en R (OP linux-ubuntu) pero no he podido por un error que según entiendo está relacionado con una librería. Me permito mostrarles el texto que me aparece luego de tratar de instalarlo desde los repositorios: >

Hi all, This is probably a very simple question but I cannot figure out how to do it. I run the fourthcorner method with my data and would like to adjust the p values for multiple comparisons using Holm correction. When I run the fourthcorner I obtain the results in yellow. What do I need to do to be able to aply the Holm correction to those p values? > library(ade4) > four1 <-

Hello, I am trying to run some AMOVA analyses with the amova function in the package ade4. When running the example dataset provided in ade4, I noticed a difference between the published results from the same data (Excoffier et al. 1992) and what ade4 calculates. Below are the data for "within sample/population" from ade4 and from the haplotypic distance matrix in the paper:

Hello, The ade4 package is now available on CRAN. ade4 is a multivariate data analysis package oriented towards statistical ecology. The main functions include one-table (PCA, COA, MCA, PCO, etc.), two-tables (PCAIV, Co-inertia, CCA, etc.) and k-tables multivariate analysis methods, with several Monte-Carlo tests and many graphical display methods. A complete documentation with many example data

Hello, The ade4 package is now available on CRAN. ade4 is a multivariate data analysis package oriented towards statistical ecology. The main functions include one-table (PCA, COA, MCA, PCO, etc.), two-tables (PCAIV, Co-inertia, CCA, etc.) and k-tables multivariate analysis methods, with several Monte-Carlo tests and many graphical display methods. A complete documentation with many example data

Dear List, I tried to conduct cca using csv data but failed. The message said that data.frame is required. Please kindly share how to convert a csv-imported file to a data.frame. Thank you. Elaine code rm(list=ls()) spec <-read.csv("c:/migration/M_R_20100718_winterM_spec_vegan.csv",header=T, row.names=1) dim(spec) spec[1,] envi

Dear R-Users, ade4TkGUI is a new package available on CRAN. It implements a Tcl/Tk graphical user interface (GUI) for the ade4 package. Only the most basic functions of ade4 have a GUI in this first version : classical one-table data analysis methods (PCA, COA, MCA, PCO, etc.), one table with groups of rows (BGA, WGA, DA), and two-tables analysis methods (Coinertia analysis, CCA, PCAIV).

Dear R-Users, ade4TkGUI is a new package available on CRAN. It implements a Tcl/Tk graphical user interface (GUI) for the ade4 package. Only the most basic functions of ade4 have a GUI in this first version : classical one-table data analysis methods (PCA, COA, MCA, PCO, etc.), one table with groups of rows (BGA, WGA, DA), and two-tables analysis methods (Coinertia analysis, CCA, PCAIV).

Dear List, I used spec and envi for cca in ade4. (both are data.frame) However, there is a message telling that error in if (nf > rank) nf <- rank R missing value in TRUE/FALSE Please kindly help how to modify the code below. Thank you. Elaine code rm(list=ls()) spec <-read.csv("c:/migration/M_R_20100718_winterM_spec_vegan.csv",header=T, row.names=1) dim(spec) spec[1,]

Hello I'm using the package ade4 to obtain classification from a .txt file. I use the following commands: cronquist <- read.table("cronquist.txt", h = T, row.names = 8) cronquist <- as.taxo(cronquist[7:1]) cro.phy <- taxo2phylog(cronquist) in which cronquist.txt is a file with a classification of 218 genus of tree species from french Guiana. We I try to use the

Un saludo a todos. Estoy haciendo un ACC y utilizo el paquete Ade4. Cuando quiero realizar un plot del resultado utilizo plot(). el resultado son 6 gráficos: loadings, correlation, inertia axes, scores and predictions, eigenvalues y species. Lo que quería saber es cómo representar en una sola ventana (los 6 gráficos a parecen en la misma) el gráfico correspondiente a Species. Gracias por vuestra

Was there ever an answer to this question about how to do amova with factorial data? t hundley [[alternative HTML version deleted]]

How do I change the postion of the legend in s.value {ade4} from the defaul , bootom left? thanks Nevil Amos

Dear All, I am using the scatter.dudi finction in the 'ade4' package to produce correspondence analysis (nice) plots. I do not seem to figure out how to plot the raw coordinates only -- or column coordinates only. I would appreciate any help in doing that. Here is the example I am following -- from the package. data(banque) > banque.acm <- dudi.acm(banque, scann = FALSE, nf =

Dear R-users, Is there an easy way to avoid points one upon another when ploting rows and columns of 'dudi' objects ? Maybe there is a function in ade4 or in an other package, or maybe someone has his or her own function to do this (for example to automatically modify a little the coordinates of these points to get a readable plot ?). Thanks in advance. Best regards, Jacques VESLOT

Hello, I am interested in using the amova function of ade4 package of R. I would like to know if there is any possibility to perform an amova with a specific anova model, as a factorial anova with some factors nested, or, if this could not be done, how could I perform an anova with my specific model but with molecular distance data? I would be very grateful if you could help me with this fact in

Dear list, I am using the plot.coinertia function from the ade4 package. Can someone tell me if it is possible to change the label size in the upper, right plot? My RV value is so high that the arrows become shorter than the labels. Thank you for your help. Oana Tomescu -- Dipl.-Ing. Oana Tomescu ACIB Core Facility Bioinformatics Institute for Genomics and Bioinformatics, TU-Graz

The ade4 package (v. 1.2-1) has been updated on CRAN. New features include: - functions based on Rao's axiomatization of diversity measures : Rao's diversity coefficient and dissimilarity coefficient (divc and disc) - functions based on Excoffier et al. analysis of molecular variance with tests of the difference among the factors (amova). - functions introducing double principal

The ade4 package (v. 1.2-1) has been updated on CRAN. New features include: - functions based on Rao's axiomatization of diversity measures : Rao's diversity coefficient and dissimilarity coefficient (divc and disc) - functions based on Excoffier et al. analysis of molecular variance with tests of the difference among the factors (amova). - functions introducing double principal

Hi all: How can I calculate the cumulative variance (or variance for each component) in correspondence analysis? If were possible in ADE4 package Thank you -- Antonio Punzón Merino O__---- Instituto Español de Oceanografía c/ /'_ --- Centro Oceanográfico de Santander (*) \(*) -- Promontorio de San Martín S/N ~~~~~~~~~~ 39004-Santander; Spain PO BOX: 240 Tlf: +34 942 29 10 60 Fax: +34