corClasses

corPhyl

Classes of phylogenetic correlation structures (<code>"corPhyl"</code>)
 available in <pkg>ape</pkg>. <item>corBrownian</item>{Brownian motion model (Felsenstein 1985)}
 <item>corMartins</item>{The covariance matrix defined in Martins and Hansen
 (1997)}
 <item>corGrafen</item>{The covariance matrix defined in Grafen (1989)}
 <item>corPagel</item>{The covariance matrix defined in Freckelton et al. (2002)}
 <item>corBlomberg</item>{The covariance matrix defined in Blomberg et al. (2003)} See the help page of each class for references and detailed
 description.

models

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.

corClasses: Phylogenetic Correlation Structures

Description

Arguments

See Also

Examples