CHANGES IN ADEPHYLO VERSION 1.1-15 FIXES o Update authors, description of tha spackage and add references o remove dontrun as required by CRAN CHANGES IN ADEPHYLO VERSION 1.1-7 FIXES o sp.tips now returns ordered paths between tips FRESH BLOOD o Anders Ellern Bilgrau has joined the development team! CHANGES IN ADEPHYLO VERSION 1.1-5 FIXES o the new NAMESPACE selectively imports procedures to avoid conflicts between ape, phylobase, and ade4. Thes packages are no longer attached when loading adephylo o most dataset examples have been 'dontrun-ed' to save time during checks of the package on CRAN CHANGES IN ADEPHYLO VERSION 1.1-4 NEW FEATURES o added the function bullseye to plot fan-like phylogenies and associated traits. o added new methods for dibas. CHANGES IN ADEPHYLO VERSION 1.1-3 NEW FEATURES o added dibas, a new (and still under development) method for describing/testing phylogenetic clusters BUG FIXES o replaced the use of .First.lib and library.dynam by more up-to-date procedures o replaced a call to a C procedure from ade4 to the same procedure in adephylo o replaced instances of 'printf' by 'Rprintf' in C procedures CHANGES IN ADEPHYLO VERSION 1.1-1 BUG FIXES o fixed the citation to be used for adephylo. CHANGES IN ADEPHYLO VERSION 1.1-0 NEW FEATURES o the phylogenetic Principal Component Analysis (pPCA, Jombart et al. 2010) has been implemented in adephylo. See ?ppca for more information. o phylogenetic distances and proximities are now computed using compiled C code, speeding up dramatically computations and making the functions applicable to large trees (thousands of tips). o table.phylo4d has now a color mode which allows using colors to represent values of traits; this is usefull for large trees. CHANGES IN ADEPHYLO VERSION 1.0-2 BUG FIXES o standardization of variables in abouheif.moran is now performed using uniform weights (instead of marginal phylogenetic weights) CHANGES IN ADEPHYLO VERSION 1.0-1 NEW FEATURES o first release on CRAN, first stable version o compatible with the first stable release of the phylobase package CHANGES IN ADEPHYLO VERSION 1.0-0 NEW FEATURES o first release of the package with unstable status. Compatible with phylobase (in development) and ape packages; package only released on R-Forge, not CRAN. o re-implements all phylogenetic methods and datasets available in ade4 o add new features to compute phylogenetic distances/proximities, pPCA, tree walks, ...