Depth of Nodes and Tips
Read DNA Sequences from GenBank via Internet
Reversible Jump MCMC to Infer Demographic History
Comparative Analysis with GEEs
Analysis of Diversification with Survival Models
Heterozygosity at a Locus Using Gene Frequencies
Klastorin's (1982) method for classifying genes as suggested by Misawa
and Tajima (2000)
Tests of Constant Diversification Rates
Branching Times of a Phylogenetic Tree
Generates Random Trees
Compute Variance Component Estimates
Content in GC from DNA Sequences
Find Segregating Sites in DNA Sequences
Read Tree File in Parenthetic Format
Write Tree File in Parenthetic Format
Get the list of Sons for a Node
Pairwise Distances from a Phylogenetic Tree
Phylogeny of the Families of Birds From Sibley and Ahlquist
Gene Tree of 36 Landplant rbcL Sequences
Chronogram Computed by Nonparametric Rate Smoothing
Fits the Yule Model With Covariates
Gamma-Statistic of Pybus and Harvey
Remove Tips in a Phylogenetic Tree
Collapsed Coalescent Intervals
Brownian Correlation Structure
Grafen's (1989) Correlation Structure
Base frequencies from DNA Sequences
Test if a Tree is Ultrametric
Skyline Plot Estimate of Effective Population Size
Fits Yule Model to a Phylogenetic Tree
Coalescent Intervals
Lynch's Comparative Method
Read Tree File in Nexus Format
Population Parameter THETA using Homozygosity
Compute a correlogram
Mantel Test for Similarity of Two Matrices
Plot several Correlograms
Population Parameter THETA using Segregating Sites
in DNA Sequences
Fits a Bunch of Models with PHYML
Write DNA Sequences in a File
Estimation of Speciation and Extinction Rates With Birth-Death Models
Number of Cherries and Null Models of Trees
Global Comparison of two Phylogenies
Binds Trees
Distance from Root to Nodes and Tips
Cheverud's Comparative Method
Minimum Spanning Tree
Taxonomic Level from a Pairwise Distances Matrix
Pairwise Distances from DNA Sequences
Get the Number of Leaves for a Node
Plot Variance Components
Ratogram Computed by Nonparametric Rate Smoothing
Cytochrome b Gene Sequences of Woodmice
Initialize a 'corPhyl' Structure Object
Read DNA Sequences in a File
Internal Ape Functions
Phylogenetic Tree of 193 HIV-1 Sequences
Objective Function Employed in Nonparametric Rate Smoothing
Branch lengths Computation
Lineages Through Time Plot
Add a Scale Bar to a Phylogeny Plot
Drawing Skyline Plot Graphs
Carnivora body sizes and life history traits
panel.superpose.correlogram
Lattice panel used in 'plot.correlogramList'.
Phylogeny of the Orders of Birds From Sibley and Ahlquist
Test for Binary Tree
Plot Phylogenies
Plot a Correlogram
Roots Phylogenetic Trees
Write Tree File in Nexus Format
Phylogenetic Correlation Structures
Pairwise Distances from Genetic Data
Martins's (1997) Correlation Structure
Pairwise Distances from a Taxonomic Level
Print Summary of a Phylogeny
Molecular Phylogeny of Living Xenarthrans
Zoom on a Portion of a Phylogeny
Moran's I Autocorrelation Index
Phylogenetically Independent Contrasts
Balance of a Dichotomous Phylogenetic Tree
Extended Version of the Birth-Death Models to Estimate Speciation
and Extinction Rates
Bat Phylogeny
Labelling the Nodes of a Tree
Gene Tree of 32 opsin Sequences
Phylogenetic Variance-covariance or Correlation Matrix
Conversion between "phylo" and "hclust" trees
Population Parameter THETA using Expected Number of Alleles
Rotate an Internal Branch of a Tree