Packaged: Mon Jun  5 11:03:56 2006; paradis

Packaged: Mon Jul 17 15:03:03 2006; paradis

Packaged: Mon Sep 18 15:43:34 2006; paradis

Packaged: Sun Dec 18 17:00:53 2005; root

Package: ape
Version: 1.9-1
Date: 2006-12-14
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: Thu Dec 14 10:17:58 2006; paradis

Package: ape
Version: 1.9-2
Date: 2007-01-23
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: Tue Jan 23 19:17:48 2007; paradis