A collection of functions to do model-based phylogenetic analysis. It includes functions to calculate community phylogenetic diversity, to estimate correlations among functional traits while accounting for phylogenetic relationships, and to fit phylogenetic generalized linear mixed models. The Bayesian phylogenetic generalized linear mixed models are fitted with the 'INLA' package (<https://www.r-inla.org>).
Version: 1.1.0 Depends: R (≥ 3.1) Imports: stats, ape, Rcpp, Matrix, methods, graphics, dplyr, lme4, nloptr, gridExtra, mvtnorm, latticeExtra, tidyr LinkingTo: Rcpp, RcppArmadillo Suggests: testthat, pez, knitr, rmarkdown, covr, picante, rbenchmark, INLA, MCMCglmm, logistf, phylolm, ggplot2, ggridges, DHARMa, rr2 Published: 2020-12-18 DOI: 10.32614/CRAN.package.phyr Author: Anthony Ives [aut], Russell Dinnage [aut], Lucas A. Nell [aut], Matthew Helmus [aut], Daijiang Li [aut, cre] Maintainer: Daijiang Li <daijianglee at gmail.com> BugReports: https://github.com/daijiang/phyr/issues License: GPL-3 URL: https://daijiang.github.io/phyr/, https://github.com/daijiang/phyr/ NeedsCompilation: yes Additional_repositories: https://inla.r-inla-download.org/R/stable/ Materials: README NEWS In views: MixedModels CRAN checks: phyr results Documentation: Downloads: Reverse dependencies: Linking:Please use the canonical form https://CRAN.R-project.org/package=phyr to link to this page.
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