Phylogenetic analysis in R: Estimation of phylogenetic trees and networks using Maximum Likelihood, Maximum Parsimony, distance methods and Hadamard conjugation.

Maintainer: Klaus Schliep <klaus.schliep at gmail.com>

Author(s): Klaus Schliep*, Emmanuel Paradis*, Leonardo de Oliveira Martins*, Alastair Potts*, Tim W. White*, Cyrill Stachniss*, Michelle Kendall*

Install package and any missing dependencies by running this line in your R console:

install.packages("phangorn")

Depends R (>= 3.2.0), ape(>=4.1)
Imports quadprog, igraph(>=1.0), Matrix, parallel, methods, utils, stats, graphics, grDevices, fastmatch, magrittr, Rcpp(>=0.12.0)
Suggests testthat, seqLogo, seqinr, xtable, flashClust, rgl, knitr, rmarkdown, Biostrings
Enhances
Linking to Rcpp
Reverse
depends
apex, MonoPhy, phybreak
Reverse
imports
BoSSA, coalescentMCMC, CommT, corHMM, indelmiss, markophylo, OUwie, paleotree, phytools, poppr, RADami, RAM, recluster, rwty, SeqFeatR, strataG, timetree, TKF, treespace
Reverse
suggests
Reverse
enhances
Reverse
linking to

Package phangorn
Materials
URL https://github.com/KlausVigo/phangorn
Task Views Genetics , Phylogenetics
Version 2.2.0
Published 2017-04-03
License GPL (>= 2)
BugReports
SystemRequirements
NeedsCompilation yes
Citation
CRAN checks phangorn check results
Package source phangorn_2.2.0.tar.gz