search for: phylogr

Dear Colleagues, We are using the phylog.gls.fit() function from the R package "PHYLOGR" (Diaz-Uriarte R, Garland T: PHYLOGR: Functions for phylogenetically based statistical analyses. 2007. Available at [http://cran.r-project.org/web/packages/PHYLOGR/index.html]) to correct for lack of independence between data points. (In our particular case, the lack of independence is due to...

...for ./src/muin2ser.f and ./misc which are free for non-commercial purposes. See file README for details. URL: http://www.r-project.org Index of Contents (Text) Reference Manual (PDF) Package Sources AnalyzeFMRI CoCoAn Devore5 EMV GLMMGibbs GenKern GeneSOM KernSmooth Matrix NISTnls Oarray PHYLOGR PTAk RArcInfo RMySQL RODBC RPgSQL RandomFields RmSQL Rstreams Rwave SASmixed SuppDists VR XML acepack adapt akima ash bindata blighty boot bootstrap bqtl car cclust cfa chron cluster cmprsk coda conf.design cramer date diamonds dse e1071 ellipse event.chart exactRankTests fastICA fdim fields foreig...

...e reply https:// www.stat.math.ethz.ch/pipermail/r-help/2003-December/041951.html. Packages which has been recommended are: WISP http://www.ruwpa.st-and.ac.uk/estimating.abundance/WiSP/ ape www.stat.uni-muenchen.de/~strimmer/ publications/ape2003.pdf phylogr http://www.stat.ucl.ac.be/ISdidactique/Rhelp/library/PHYLOGR/html/00Index.html genetics cran.r-project.org/doc/packages/genetics.pdf VEGAN http://cc.oulu.fi/~jarioksa/softhelp/vegan.html ADE4 http://pbil.univ-lyon1.fr/ADE-4/ADE-4.html Spatstat...

Dear All, A library (PHYLOGR) that passed the usual tests in R-1.1.1 gives errors with R-devel; my (mis?)understanding of scoping rules is that it should have worked in both. The problems seem related to using the name of the data frame for extracting weights or subsets within a function call. The problems can be reproduced as...

Hi, I'm using: platform i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status major 1 minor 5.1 year 2002 month 06 day 17 language R and I would like to apply: > update.packages() trying URL

Hi I am looking for a package that 1. reads in a phylogenetic tree in NEXUS format 2. given two members/nodes on the tree, can return the distance between the two using the tree. I came across the following packages on CRAN ouch, ape, apTreeShape, phylgr all of which seem to provide extensive range of functions for reading in a Nexus-format tree and performing phylogenetic analyses, tree

Hello to everyone! I have built CRAN task view for genetics. For now I have not submit it to CRAN yet and it can be accessible from: http://www.bfro.uni-lj.si/MR/ggorjan/software/R/Genetics.html http://www.bfro.uni-lj.si/MR/ggorjan/software/R/Genetics.ctv I have not submitted it to CRAN, since I would like first some opinion about it. Genetics is really so broad field that I belive one person

...il, gnlm, stable, growthm repeated, event, ordinal -- Bioconductor packages Biobase, annotate, affy, AnnBuilder, edd, genefilter, geneplotter, rhdf5, marrayTest, marrayClasses, marrayInput, marrayPlots, multtest, ROC, tkWidgets -- snow from Tierney -- deal from gR -- from Devel Dopt, GRASS, PHYLOGR, R2HTML, RPgSQL, dseplus, pls, runstat, multidim, mclust, ensemble, locfit, write-snns -- from OmegaHat gtk, OOP, RGtk, RGtkViewers, RObjectTables, RSPerl, RSPython what does NOT load tkrplot > library(tkrplot) Loading required package: tcltk dyld: /usr/local/lib/R/bin/R.bin malformed li...

> I believe the problem is related to the change in the > installation directory for the updated JVM from Sun. > > If you use the jre1.5.0_02 from java.sun.com, then the plugin > is installed in: > > /usr/java/jre1.5.0_02/plugin/i386/ns7/libjavaplugin_oji.so Ok, the above pathname is the exact one. Yes, this is the one I used. > > I just downloaded the updated

...,"partsm","party","pastecs","pbatR","PBSmapping","pcaPP","pcurve","pear","permax","permtest","perturb","pgam","pgirmess","pheno","phpSerialize","PHYLOGR","pinktoe","pixmap","PK","PKfit","plotrix","pls","plsgenomics","plugdensity","polspline","polyapost","polycor","polynom","popgen","portfolio","POT&qu...

CRAN (and crantastic) updates this week New packages ------------ * allan (1.0) Alan Lee http://crantastic.org/packages/allan Automates Large Linear Analysis Model Fitting * andrews (1.0) Jaroslav Myslivec http://crantastic.org/packages/andrews Andrews curves for visualization of multidimensional data * anesrake (0.3) Josh Pasek http://crantastic.org/packages/anesrake This