Anolis.data             Anolis dataset
BICompare               Identify modalities in a phylogeny
Balaenopteridae         Balaenopteridae phylogeny
Calomys                 Calomys phylogeny
Cetacea                 Cetacean phylogeny
CreateGeoObject         Create blank geography object
InfTemp                 Paleotemperature data across the Cenozoic
JSDtree                 Jensen-Shannon distance between phylogenies
JSDtree_cluster         Clustering of phylogenies
Phocoenidae             Phocoenidae phylogeny
Phyllostomidae          Phyllostomidae phylogeny
Phyllostomidae_genera   Phylogenies of Phyllostomidae genera
RPANDA-package          RPANDA
fit_bd                  Maximum likelihood fit of the general
                        birth-death model
fit_coal_cst            Maximum likelihood fit of the equilibrium model
fit_coal_var            Fit birth-death model using a coalescent
                        approch
fit_env                 Maximum likelihood fit of the environmental
                        birth-death model
fit_sgd                 Maximum likelihood fit of the SGD model
fit_t_comp              Fits models of trait evolution incorporating
                        competitive interactions
likelihood_bd           Likelihood of a phylogeny under the general
                        birth-death model
likelihood_coal_cst     Likelihood of a phylogeny under the equilibrium
                        diversity model
likelihood_coal_var     Likelihood of a birth-death model using a
                        coalescent approch
likelihood_sgd          Likelihood of a phylogeny under the SGD model
likelihood_t_DD         Likelihood of a dataset under
                        diversity-dependent models.
likelihood_t_DD_geog    Likelihood of a dataset under
                        diversity-dependent models with biogeography.
likelihood_t_MC         Likelihood of a dataset under the matching
                        competition model.
likelihood_t_MC_geog    Likelihood of a dataset under the matching
                        competition model with biogeography.
plot_BICompare          Display modalities on a phylogeny.
plot_dtt                Plot diversity through time
plot_fit_bd             Plot speciation, extinction & net
                        diversification rate functions of a fitted
                        model
plot_fit_env            Plot speciation, extinction & net
                        diversification rate functions of a fitted
                        environmental model
plot_spectR             Spectral density plot of a phylogeny.
sim_sgd                 Algorithm for simulating a phylogenetic tree
                        under the SGD model
sim_t_comp              Recursive simulation (root-to-tip) of
                        competition models
spectR                  Spectral density plot of a phylogeny
