6 Analyses of Phylogenetics and Evolution
9 \pkg{ape} provides functions for reading and manipulating phylogenetic
10 trees and DNA sequences, computing DNA distances, estimating trees
11 with distance-based methods, and a range of methods for comparative
12 analyses and analysis of diversification. Functionalities are also
13 provided for programming new phylogenetic methods.
15 The complete list of functions can be displayed with
16 \code{library(help = ape)}.
18 More information on \pkg{ape} can be found at \url{http://ape.mpl.ird.fr/}.
22 Emmanuel Paradis, Ben Bolker, Julien Claude, Hoa Sien Cuong, Richard
23 Desper, Benoit Durand, Julien Dutheil, Olivier Gascuel, Christoph
24 Heibl, Daniel Lawson, Vincent Lefort, Pierre Legendre, Jim Lemon,
25 Yvonnick Noel, Johan Nylander, Rainer Opgen-Rhein, Andrei-Alin
26 Popescu, Klaus Schliep, Korbinian Strimmer, Damien de Vienne
28 Maintainer: Emmanuel Paradis <Emmanuel.Paradis@ird.fr>
31 Paradis, E. (2012) \emph{Analysis of Phylogenetics and Evolution with
32 R (Second Edition).} New York: Springer.
34 Paradis, E., Claude, J. and Strimmer, K. (2004) APE: analyses of
35 phylogenetics and evolution in R language. \emph{Bioinformatics},