Package: ape
Version: 1.9
Date: 2006-11-19
Title: Analyses of Phylogenetics and Evolution
Author: Ben Bolker, Julien Claude, Beno�t Durand,
Julien Dutheil, Gangolf Jobb, Jim Lemon, Yvonnick No�l,
Johan Nylander, Rainer Opgen-Rhein, Emmanuel Paradis,
Korbinian Strimmer
Maintainer: Emmanuel Paradis <paradis@isem.univ-montp2.fr>
Depends: R (>= 2.0.0)
Suggests: gee, nlme, lattice
ZipData: no
Description: Ape provides functions for reading, writing, plotting,
and manipulating phylogenetic trees, analyses of comparative data
in a phylogenetic framework, analyses of diversification and
macroevolution, computing distances from allelic and nucleotide
data, reading nucleotide sequences, and several tools such as
Mantel's test, computation of minimum spanning tree, the population
parameter theta based on various approaches, nucleotide diversity,
generalized skyline plots, estimation of absolute evolutionary rates
and clock-like trees using non-parametric rate smoothing and penalized
likelihood, classifying genes in trees using the Klastorin-Misawa-Tajima
approach. Phylogeny estimation can be done with the NJ and ML methods.
License: GPL version 2 or newer
Packaged: Sun Nov 19 22:40:10 2006; paradis

Package: ape
Version: 2.0-1
Date: 2007-09-05
Title: Analyses of Phylogenetics and Evolution
Author: Ben Bolker, Julien Claude, Hoa Sien Cuong, Richard Desper,
Benoit Durand, Julien Dutheil, Olivier Gascuel, Gangolf Jobb,
Christoph Heibl, Vincent Lefort, Jim Lemon, Yvonnick Noel,
Johan Nylander, Rainer Opgen-Rhein, Emmanuel Paradis,
Korbinian Strimmer
Maintainer: Emmanuel Paradis <Emmanuel.Paradis@mpl.ird.fr>
Depends: R (>= 2.0.0)
Suggests: gee, nlme, lattice
ZipData: no
Description: ape provides functions for reading, writing, plotting,
and manipulating phylogenetic trees, analyses of comparative data
in a phylogenetic framework, analyses of diversification and
macroevolution, computing distances from allelic and nucleotide
data, reading nucleotide sequences, and several tools such as
Mantel's test, computation of minimum spanning tree, the population
parameter theta based on various approaches, nucleotide diversity,
generalized skyline plots, estimation of absolute evolutionary rates
and clock-like trees using mean path lengths, non-parametric rate
smoothing and penalized likelihood, classifying genes in trees using
the Klastorin-Misawa-Tajima approach. Phylogeny estimation can be done
with the NJ, BIONJ, ME, and ML methods.
License: GPL version 2 or newer
URL: http://pbil.univ-lyon1.fr/R/ape/
Packaged: Fri Sep  7 15:16:46 2007; paradis