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