Package: treeducken
Type: Package
Title: Nested Phylogenetic Tree Simulator
Version: 1.1.0
Authors@R: c(person("Wade", "Dismukes", email="wade.dismukes@gmail.com",
                    role=c("aut","cre")),
           person(c("Tracy","A."), "Heath", role=c("aut")),
           person("Josh", "Justison", role=c("ctb")),
           person("Damien", "de Vienne", role=c("ctb")),
           person("Liam", "Revell", role=c("ctb")),
           person("Emmanuel", "Paradis", role=c("ctb")),
           person("Klaus", "Schliep", role=c("ctb")),
           person("Ben", "Bolker", role=c("ctb")),
           person(c("Luke","J."), "Harmon", role=c("ctb")),
           person(c("Joseph","W."), "Brown", role=c("ctb")))
Description: Simulates nested phylogenetic trees (gene trees in species tree, 
    symbiont trees in host trees) using birth-death processes and transfers
    between lineages. Simulations of gene trees within species trees are performed
    using a three-tree model with species trees, locus trees, and gene trees.
    The cophylogenetic birth-death process is used to simulate sets of host and
    symbiont trees with extant associations between tips.  
    For more information about the three-tree model see:
    Mallo et al. (2015) <doi:10.1093/sysbio/syv082>, 
    Rasmussen and Kellis (2012) <doi:10.1101/gr.123901.111>.
License: GPL-3
SystemRequirements: C++11
Imports: Rcpp (>= 1.0.2), apTreeshape, graphics, methods
Depends: ape
LinkingTo: Rcpp, RcppArmadillo
RoxygenNote: 7.1.1
LazyData: true
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2021-03-01 22:48:23 UTC; waded
Author: Wade Dismukes [aut, cre],
  Tracy A. Heath [aut],
  Josh Justison [ctb],
  Damien de Vienne [ctb],
  Liam Revell [ctb],
  Emmanuel Paradis [ctb],
  Klaus Schliep [ctb],
  Ben Bolker [ctb],
  Luke J. Harmon [ctb],
  Joseph W. Brown [ctb]
Maintainer: Wade Dismukes <wade.dismukes@gmail.com>
Repository: CRAN
Date/Publication: 2021-03-02 05:20:03 UTC
Built: R 4.0.5; x86_64-w64-mingw32; 2022-04-18 02:42:58 UTC; windows
Archs: i386, x64
