Phylogenetic ANalyses of DiversificAtion

Implements macroevolutionary analyses on phylogenetic trees. See Morlon et al. (2010) , Morlon et al. (2011) , Condamine et al. (2013) , Morlon et al. (2014) , Manceau et al. (2015) , Lewitus & Morlon (2016) , Drury et al. (2016) , Manceau et al. (2016) , Morlon et al. (2016) , Clavel & Morlon (2017) , Drury et al. (2017) , Lewitus & Morlon (2017) , Drury et al. (2018) , Clavel et al. (2019) and Maliet et al. (2019) .


R: Phylogenetic ANalyses of DiversificAtion

Implements fits of diversification and phenotypic evolution models to phylogenetic data. See Morlon et al. PLoSB (2010), Morlon et al. PNAS (2011), Condamine et al. Eco Lett (2013), Morlon et al. Eco Lett (2014), Manceau et al. Eco Lett (2015), Lewitus & Morlon Syst Biol (2016), Drury et al. Syst Biol (2016), Manceau et al. Syst Biol (2016), Clavel & Morlon PNAS (2017), Drury et al. Syst Biol (2017), Lewitus & Morlon Syst Biol (2017), Drury et al. PLoSB (2018) and Clavel et al. Syst Biol (2019).

More information on the RPANDA package and worked examples can be found in Morlon et al. (2016)

The current stable version of the RPANDA package (1.5) is available on the CRAN repository. https://cran.r-project.org/package=RPANDA

Package Installation

From gitHub You can install RPANDA directly from gitHub with devtools:

library(devtools)

install_github("hmorlon/PANDA", dependencies = TRUE)

From the binaries

You can download the pre-released binaries for Windows and Mac OS X from the release page

From the source

Otherwise, you can install it directly from the source. Download the RPANDA folder and then, from the terminal console (linux, windows or mac):

R CMD build RPANDA

This will produce the RPANDA tarball.

Then, for compiling the binary:

R CMD INSTALL --build RPANDA_1.X.tar.gz

Report an issue

Any bugs encountered when using the package can be reported here

Continuous integration

Travis-CI Build Status: Build Status

News

Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("RPANDA")

1.6 by Hélène Morlon, 9 days ago


https://github.com/hmorlon/PANDA


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


Authors: Hélène Morlon [aut, cre, cph] , Eric Lewitus [aut, cph] , Fabien Condamine [aut, cph] , Marc Manceau [aut, cph] , Julien Clavel [aut, cph] , Jonathan Drury [aut, cph] , Olivier Billaud [aut, cph] , Odile Maliet [aut, cph]


Documentation:   PDF Manual  


GPL-2 license


Imports ape, pspline, deSolve, igraph, TESS, cluster, fpc, pvclust, corpcor, phytools, mvMORPH, stats, graphics, grDevices, utils, geiger, mvtnorm, Matrix, pracma, glassoFast, Rmpfr, fields, coda, parallel

Depends on picante, methods

Suggests testthat


See at CRAN