anolis.data | Anolis data |
anolis.tree | Anolis phylogeny |
as.rateData | Conversion among data and phylogeny objects |
as.rateMatrix | Conversion among data and phylogeny objects |
cladeIdentity | Identify branches (including tips) descended from a node... |
fairProportions | Calculate fair proportions phylogenetic diversity metric |
likRatePhylo | Log-likelihood rate estimation for traits and phylogenies |
likTraitPhylo | Log-likelihood rate estimation for traits and phylogenies |
make.anc | Create design matrix (internal function) |
make.likRatePhylo | Internal function |
ML.RatePhylo | Maximum likelihood rate estimation for traits and phylogenies |
motmot-package | Models of trait macroevolution on trees |
node.descendents | Identify nodes and tips descended from a node (internal... |
optim.likRatePhylo | Maximum likelihood rate estimation for traits and phylogenies |
phyloCovar | Calculation of Brownian (co)variance using independent... |
phyloMean | Calculation of phylogenetically corrected mean. |
phyloVar | Calculation of Brownian variance. |
pic.motmot | Phylogenetically independent contrasts (internal) |
plotPhylo.motmot | Tree plotting for rates |
RatePhylo.allCI | Confidence intervals for rate parameters |
RatePhylo.CI | Confidence intervals for rate parameters |
traitMedusaSummary | Identify shifts in the rate of trait diversification |
transformPhylo | Phylogenetic tree transformations |
transformPhylo.ll | Log-likelhood for models of trait evoluion. |
transformPhylo.ML | Maximum likelhood for models of trait evoluion. |
transformPhylo.sim | Simulate trait data |
transformRateMatrix | Conversion among data and phylogeny objects |
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