DESCRIPTION

Package: phangorn
Title: Phylogenetic Reconstruction and Analysis
Version: 2.12.1.1
Authors@R: 
    c(person("Klaus", "Schliep", role = c("aut", "cre"),
             email = "klaus.schliep@gmail.com",
             comment = c(ORCID = "0000-0003-2941-0161")),
      person("Emmanuel", "Paradis", role = "aut",
             comment = c(ORCID = "0000-0003-3092-2199")),
      person("Leonardo", "de Oliveira Martins", role = "aut",
             comment = c(ORCID = "0000-0001-5247-1320")),
      person("Alastair", "Potts", role = "aut"),
      person("Iris", "Bardel-Kahr", role = "aut",
             comment = c(ORCID = "0000-0002-8950-834X")),            
      person("Tim W.", "White", role = "ctb"),
      person("Cyrill", "Stachniss", role = "ctb"),
      person("Michelle", "Kendall", role = "ctb",
             email = "m.kendall@imperial.ac.uk"),
      person("Keren", "Halabi",  role = "ctb"),
      person("Richel", "Bilderbeek",  role = "ctb"),
      person("Kristin", "Winchell", role = "ctb"),
      person("Liam", "Revell", role = "ctb"),
      person("Mike", "Gilchrist", role = "ctb"),
      person("Jeremy", "Beaulieu", role = "ctb"),
      person("Brian", "O'Meara", role = "ctb"),
      person("Long", "Qu", role = "ctb"), 
      person(given= "Joseph", "Brown", role = "ctb", 
             comment = c(ORCID = "0000-0002-3835-8062")),
      person(given="Santiago", "Claramunt", role = "ctb", 
             comment = c(ORCID = "0000-0002-8926-5974")))
Description: Allows for estimation of phylogenetic trees and networks
    using Maximum Likelihood, Maximum Parsimony, distance methods and
    Hadamard conjugation (Schliep 2011). Offers methods for tree comparison, 
    model selection and visualization of phylogenetic networks as described in
    Schliep et al. (2017).
License: GPL (>= 2)
URL: https://github.com/KlausVigo/phangorn,
    https://klausvigo.github.io/phangorn/
BugReports: https://github.com/KlausVigo/phangorn/issues
Depends:
    ape (>= 5.8),
    R (>= 4.1.0)
Imports:
    digest,
    generics,
    graphics,
    grDevices,
    igraph (>= 1.0),
    Matrix,
    methods,
    parallel,
    quadprog,
    Rcpp,
    stats,
    utils
Suggests:
    apex,
    Biostrings,
    fastmatch,
    ggseqlogo,
    ggplot2,
    knitr,
    magick,
    rgl,
    rmarkdown,
    seqinr,
    testthat (>= 3.0.0),
    tinytest,
    vdiffr,
    xtable
Remotes: github::emmanuelparadis/ape
LinkingTo:
    Rcpp, RcppArmadillo
VignetteBuilder: 
    knitr,
    utils
biocViews: Software, Technology, QualityControl
Encoding: UTF-8
Repository: CRAN
Roxygen: list(old_usage = TRUE)
RoxygenNote: 7.3.2
Language: en-US
Config/testthat/edition: 3