mvSLOUCH: Multivariate Stochastic Linear Ornstein-Uhlenbeck Models for Phylogenetic Comparative Hypotheses

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Fits multivariate Ornstein-Uhlenbeck types of models to continues trait data from species related by a common evolutionary history.

Author
Krzysztof Bartoszek <bartoszekkj@gmail.com>
Date of publication
2016-06-06 20:25:26
Maintainer
Krzysztof Bartoszek <bartoszekkj@gmail.com>
License
GPL (>= 2) | file LICENCE
Version
1.3.2

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Man pages

BrownianMotionModel
Estimate parameters under a Brownian motion model of...
drawPhylProcess
Plots the realization of a process evolving on a phylogenetic...
estimate.evolutionary.model
Wrapper function to find best (out of BM, OU, OUOU, OUBM)...
fitch.mvsl
Unordered Fitch parsimony reconstruction of discrete...
generate.model.setups
Generate a list of model setups for the function...
mvSLOUCH-internal
Internal mvSLOUCH objects
mvslouchModel
Estimate parameters under a (multivariate) OUBM model of...
mvSLOUCH-package
Multivariate Ornstein-Uhlenbeck type stochastic differential...
ouchModel
Estimate parameters under a (multivariate) OU model of...
simulBMProcPhylTree
Simulate data on a phylogeny under a (multivariate) Brownian...
simulMVSLOUCHProcPhylTree
Simulate data on a phylogeny under a (multivariate) OUBM...
simulOUCHProcPhylTree
Simulate data on a phylogeny under a (multivariate) OU model
SummarizeBM
Summarize parameters estimated under a Brownian motion model
SummarizeMVSLOUCH
Summarize parameters estimated under a multivariate OUBM...
SummarizeOUCH
Summarize parameters estimated under a (multivariate) OU...

Files in this package

mvSLOUCH
mvSLOUCH/inst
mvSLOUCH/inst/CITATION
mvSLOUCH/inst/GPL-2
mvSLOUCH/inst/GPL-3
mvSLOUCH/NAMESPACE
mvSLOUCH/R
mvSLOUCH/R/modelparams.R
mvSLOUCH/R/estimGLSGC.R
mvSLOUCH/R/ouch2slouch.mvsl.R
mvSLOUCH/R/phylgls.R
mvSLOUCH/R/make.states.mvsl.R
mvSLOUCH/R/sdemomentsphyl.R
mvSLOUCH/R/simulVasicekproc.R
mvSLOUCH/R/matrixparametrizations.R
mvSLOUCH/R/modelparamssummary.R
mvSLOUCH/R/wrappers.R
mvSLOUCH/R/estimBM.R
mvSLOUCH/R/loglik.R
mvSLOUCH/R/fitch.mvsl.R
mvSLOUCH/R/PhyloSDEestim.R
mvSLOUCH/R/modelparamstransform.R
mvSLOUCH/R/treeDists.R
mvSLOUCH/R/getESS.R
mvSLOUCH/R/regimes.R
mvSLOUCH/R/estimMAXLIK.R
mvSLOUCH/R/matrixexps.R
mvSLOUCH/R/sdemoments.R
mvSLOUCH/R/precalcs.R
mvSLOUCH/R/simulVasicekprocphyl.R
mvSLOUCH/R/evolmodelest.R
mvSLOUCH/R/grid.R
mvSLOUCH/R/ci.R
mvSLOUCH/R/MVslouchSimulStudy.R
mvSLOUCH/MD5
mvSLOUCH/DESCRIPTION
mvSLOUCH/LICENCE
mvSLOUCH/man
mvSLOUCH/man/mvSLOUCH-internal.Rd
mvSLOUCH/man/simulMVSLOUCHProcPhylTree.Rd
mvSLOUCH/man/fitch.mvsl.Rd
mvSLOUCH/man/SummarizeMVSLOUCH.Rd
mvSLOUCH/man/estimate.evolutionary.model.Rd
mvSLOUCH/man/SummarizeBM.Rd
mvSLOUCH/man/mvSLOUCH-package.Rd
mvSLOUCH/man/simulBMProcPhylTree.Rd
mvSLOUCH/man/drawPhylProcess.Rd
mvSLOUCH/man/generate.model.setups.Rd
mvSLOUCH/man/SummarizeOUCH.Rd
mvSLOUCH/man/mvslouchModel.Rd
mvSLOUCH/man/simulOUCHProcPhylTree.Rd
mvSLOUCH/man/ouchModel.Rd
mvSLOUCH/man/BrownianMotionModel.Rd