motmot2.1.3 package

add a fossil to an interior branch of a time-scaled phylogeny

Finch allopatric data

Conversion among data and phylogeny objects

Conversion among data and phylogeny objects

Blomberg's K Estimate Blomberg's K (Blomberg et al. 2003)

Calculate multiple-test cut-off

Character displacement likelihood ratio test

Simulate character displacement data wrapper

Simulate character displacement data

prune tree and data to lineages present in a time bin in the past

Drop tips from a phylogenetic tree while preserving deleted nodes

Calculate fair proportions phylogenetic diversity metric

Finch phenotype data

Finch tree

Log-likelihood rate estimation for traits and phylogenies

Log-likelihood estimation for traits and phylogenies

plot the output from transformPhylo.MCMC

Maximum likelihood rate estimation for traits and phylogenies

Models Of Trait Macroevolution On Trees

Identify nodes and tips descended from a node

Get times for nodes and tips

Maximum likelihood rate estimation for traits and phylogenies

Calculation of Brownian (co)variance using independent contrasts.

Calculation of phylogenetically corrected mean.

Calculation of Brownian variance.

Fast PLGS estimation based on contrasts

Identify shifts in the rate of trait diversification through time

Tree plotting for rates

Confidence intervals for rate parameters

Sample hidden speciation events along branches of a tree

Sort data and remove missing entries for tree and trait data

Identify shifts in the rate of trait diversification

plot a univariate continuous trait data on a phylogeny

Log-likelhood for models of trait evolution.

Bayesian MCMC for models of trait evolution

Maximum likelihood for models of trait evoluion

Phylogenetic tree transformations

Phylogenetic tree transformations

Conversion among data and phylogeny objects