Phylogenetic Comparative Methods for High-Dimensional Traits


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Documentation for package ‘phylocurve’ version 2.0.10

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phylocurve-package Phylogenetic Comparative Methods for Function-Valued and Other High-Dimensional Traits
compare.models Compare evolutionary hypotheses
evo.model Fit an evolutionary model
fast.geomorph.compare.evol.rates Fast covariance-based implementations of distance-based methods
fast.geomorph.compare.multi.evol.rates Fast covariance-based implementations of distance-based methods
fast.geomorph.phylo.integration Fast covariance-based implementations of distance-based methods
fast.geomorph.physignal Fast covariance-based implementations of distance-based methods
fast.geomorph.procD.pgls Fast covariance-based implementations of distance-based methods
get.aligned.function.data Estimate aligned data for function-valued traits
get.tip.coefficients Estimate regression coefficients for tip species curves
GP.fit Fit Gaussian process curves to species data
K.mult Test phylogenetic signal (Kmult) using phylogenetic simulation
multipic Efficient PIC algorithm for multiple traits
nonlinear.fit Fit nonlinear curves to species data
paint.edges Paint tree edges based on species regimes
phylocurve Ancestral curve reconstruction for logistic regression (glm with logit link)
phylocurve.generalized Align curves of any shape
phylocurve.trim Trim aligned curves
polynomial.fit Fit polynomial curves to species data using stepwise regression
prep_multipic Prep multipic
print.evo.model Print evo.model
sim.curves Simulate function-valued curve evolution
sim.traits Simulate multivariate trait evolution
ultraFastAnc Ultra-fast maximum likelihood ancestral state reconstruction