Automatic Shift Detection using a Phylogenetic EM

Implementation of the automatic shift detection method for Brownian Motion (BM) or Ornstein–Uhlenbeck (OU) models of trait evolution on phylogenies. Some tools to handle equivalent shifts configurations are also available.


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install.packages("PhylogeneticEM")

1.0.0 by Paul Bastide, 3 months ago


https://github.com/pbastide/PhylogeneticEM


Report a bug at https://github.com/pbastide/PhylogeneticEM/issues


Browse source code at https://github.com/cran/PhylogeneticEM


Authors: Paul Bastide [aut, cre], Mahendra Mariadassou [ctb]


Documentation:   PDF Manual  


GPL (>= 2) | file LICENSE license


Imports capushe, foreach, gglasso, glmnet, graphics, grDevices, LINselect, MASS, methods, plyr, Rcpp, robustbase, stats, utils

Depends on ape, Matrix

Suggests combinat, doParallel, phytools, Rphylopars, testthat, TreeSim, knitr, rmarkdown

Linking to Rcpp, RcppArmadillo


See at CRAN