aicm                    Akaike's Information Criterion for MCMC samples
                        (AICM)
aicw                    determining Akaike weights
amphibia                example datasets
aov.phylo               phylogenetic ANOVA and MANOVA
bd.ms                   estimate net diversification rate
calibrate.mecca         calibrating MECCA
calibrate.rjmcmc        initialize proposal width
congruify.phylo         ultrametricization of trees from a supplied
                        timetree
dcount                  prior densities for truncated discrete random
                        variable
drop.extinct            prune specified taxa from a phylogenetic tree
dtt                     disparity-through-time
ex.traitgram            internal geiger functions
fitContinuous           Model fitting for continuous comparative data
fitContinuousMCMC       Fit models of continuous trait evolution to
                        comparative data using MCMC
fitDiscrete             Model fitting for discrete comparative data
gbresolve               NCBI taxonomy
geiger-defunct          deprecated functions in GEIGER
geiger-package          GEIGER
load.rjmcmc             posterior samples from single or multiple MCMC
                        runs
make.gbm                tailor reversible-jump Markov chain Monte Carlo
                        sampling
mecca                   running a MECCA analysis
medusa                  MEDUSA: modeling evolutionary diversification
                        using stepwise AIC
name.check              Compares taxa in data and tree
nh.test                 using the Freckleton and Harvey node-height
                        test
nodelabel.phylo         Blending information from taxonomies and trees
plot.medusa             MEDUSA: modeling evolutionary diversification
                        using stepwise AIC
pp.mcmc                 using posterior predictive MCMC for modeling
                        quantitative trait evolution
r8s.phylo               call r8s from geiger
ratematrix              evolutionary VCV matrix
rc                      relative cladogenesis test
rescale.phylo           Rescale object of class '"phylo"'
rjmcmc.bm               Bayesian sampling of shifts in trait evolution:
                        relaxed Brownian motion
sim.bd                  birth-death population simulator
sim.bdtree              birth-death tree simulator
sim.char                simulate character evolution
startingpt.mecca        starting values for MECCA
subset.phylo            blending information from taxonomies and trees
tips                    descendents of a given node in a phylogenetic
                        tree
to.auteur               conversion of MCMC samples between auteur and
                        coda
treedata                compare taxa in data and tree
