pez: Phylogenetics for the Environmental Sciences

Eco-phylogenetic and community phylogenetic analyses. Keeps community ecological and phylogenetic data matched up and comparable using 'comparative.comm' objects. Wrappers for common community phylogenetic indices ('pez.shape', 'pez.evenness', 'pez.dispersion', and 'pez.dissimilarity' metrics). Implementation of Cavender-Bares (2004) correlation of phylogenetic and ecological matrices ('fingerprint.regression'). Phylogenetic Generalised Linear Mixed Models (PGLMMs; 'pglmm') following Ives & Helmus (2011) and Rafferty & Ives (2013). Simulation of null assemblages, traits, and phylogenies ('scape', 'sim.meta.comm').

Version: 1.1-1
Depends: ape (≥ 3.1-4)
Imports: caper (≥ 0.5-2), picante (≥ 1.6-2), quantreg (≥ 5.05), mvtnorm (≥ 1.0-0), vegan (≥ 2.0-10), ade4 (≥ 1.6-2), apTreeshape (≥ 1.4-5), FD (≥ 1.0-12), Matrix (≥ 1.1-4), methods (≥ 3.1.0)
Suggests: knitr (≥ 1.6), lme4 (≥ 1.1-7)
Published: 2016-01-15
Author: William D. Pearse, Marc W. Cadotte, Jeannine Cavender-Bares, Anthony R. Ives, Caroline Tucker, Steve C. Walker, Matthew R. Helmus
Maintainer: William D. Pearse <will.pearse at gmail.com>
BugReports: NA
License: GPL-3
URL: NA
NeedsCompilation: no
Citation: pez citation info
Materials: NEWS
CRAN checks: pez results

Downloads:

Reference manual: pez.pdf
Vignettes: pez-intro
pez-pglmm-overview
Package source: pez_1.1-1.tar.gz
Windows binaries: r-devel: pez_1.1-1.zip, r-release: pez_1.1-1.zip, r-oldrel: pez_1.1-1.zip
OS X Mavericks binaries: r-release: pez_1.1-1.tgz, r-oldrel: pez_1.1-1.tgz
Old sources: pez archive