phylocurve: Phylogenetic Comparative Methods for High-Dimensional Traits

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Tools for studying the evolution of high-dimensional traits (morphometric, function-valued, etc.) including ancestral state reconstruction, estimating phylogenetic signal, and assessing correlated trait evolution. Visit http://www.phylocurve.org for more information.

Author
Eric W. Goolsby
Date of publication
2016-12-05 08:27:40
Maintainer
Eric W. Goolsby <eric.goolsby.evolution@gmail.com>
License
GPL (>= 2)
Version
2.0.7
URLs

View on CRAN

Man pages

compare.models
Compare evolutionary hypotheses
evo.model
Fit an evolutionary model
fast.geomorph.compare.evol.rates
Fast covariance-based implementations of distance-based...
fast.geomorph.compare.multi.evol.rates
Fast covariance-based implementations of distance-based...
fast.geomorph.phylo.integration
Fast covariance-based implementations of distance-based...
fast.geomorph.physignal
Fast covariance-based implementations of distance-based...
fast.geomorph.procD.pgls
Fast covariance-based implementations of distance-based...
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...
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...
phylocurve.generalized
Align curves of any shape
phylocurve-package
Phylogenetic Comparative Methods for Function-Valued and...
phylocurve.trim
Trim aligned curves
polynomial.fit
Fit polynomial curves to species data using stepwise...
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

Files in this package

phylocurve
phylocurve/inst
phylocurve/inst/CITATION
phylocurve/src
phylocurve/src/Makevars
phylocurve/src/phylocurve_rcpp.cpp
phylocurve/src/Makevars.win
phylocurve/src/RcppExports.cpp
phylocurve/NAMESPACE
phylocurve/R
phylocurve/R/phylocurve.R
phylocurve/R/RcppExports.R
phylocurve/R/fast_geomorph_functions.R
phylocurve/MD5
phylocurve/DESCRIPTION
phylocurve/man
phylocurve/man/compare.models.Rd
phylocurve/man/phylocurve.trim.Rd
phylocurve/man/phylocurve.generalized.Rd
phylocurve/man/nonlinear.fit.Rd
phylocurve/man/evo.model.Rd
phylocurve/man/paint.edges.Rd
phylocurve/man/polynomial.fit.Rd
phylocurve/man/fast.geomorph.procD.pgls.Rd
phylocurve/man/get.tip.coefficients.Rd
phylocurve/man/phylocurve-package.Rd
phylocurve/man/K.mult.Rd
phylocurve/man/get.aligned.function.data.Rd
phylocurve/man/fast.geomorph.phylo.integration.Rd
phylocurve/man/fast.geomorph.compare.evol.rates.Rd
phylocurve/man/GP.fit.Rd
phylocurve/man/ultraFastAnc.Rd
phylocurve/man/fast.geomorph.physignal.Rd
phylocurve/man/sim.curves.Rd
phylocurve/man/fast.geomorph.compare.multi.evol.rates.Rd
phylocurve/man/print.evo.model.Rd
phylocurve/man/sim.traits.Rd
phylocurve/man/phylocurve.Rd
phylocurve/man/multipic.Rd
phylocurve/man/prep_multipic.Rd