Package: treenomial
Type: Package
Title: Comparison of Trees using a Tree Defining Polynomial
Version: 1.1.3
Authors@R: 
  c(person(given = "Matthew",
           family = "Gould",
           role = c("aut", "cre"),
           email = "mgould@sfu.ca"),
    person(given = "Pengyu",
           family = "Liu",
           role = "ctb",
           email = "pengyu_liu@sfu.ca"),
    person(given = "Caroline",
           family = "Colijn",
           role = "ctb")) 
Maintainer: Matthew Gould <mgould@sfu.ca>
Description: Provides functionality for creation and comparison of polynomials that uniquely
  describe trees as introduced in Liu (2019, <arXiv:1904.03332>). The core method
  converts rooted unlabeled phylo objects from 'ape' to the tree defining polynomials 
  described with coefficient matrices. Additionally, a conversion for rooted binary trees 
  with binary trait labels is also provided. Once the polynomials of trees are calculated 
  there are functions to calculate distances, distance matrices and plot different distance 
  trees from a target tree. Manipulation and conversion to the tree defining polynomials is 
  implemented in C++ with 'Rcpp' and 'RcppArmadillo'. Furthermore, parallel programming with 
  'RcppThread' is used to improve performance converting to polynomials and calculating distances. 
Depends: R (>= 3.5.0)
License: GPL (>= 2)
URL: https://github.com/mattgou1d/treenomial
Encoding: UTF-8
Imports: Rcpp (>= 1.0.1), ape, methods
LinkingTo: Rcpp, RcppArmadillo, RcppThread
RoxygenNote: 7.1.1
Suggests: knitr, rmarkdown, testthat
NeedsCompilation: yes
Packaged: 2020-10-05 14:41:43 UTC; mgould
Author: Matthew Gould [aut, cre],
  Pengyu Liu [ctb],
  Caroline Colijn [ctb]
Repository: CRAN
Date/Publication: 2020-10-05 15:00:02 UTC
Built: R 4.0.5; x86_64-w64-mingw32; 2022-04-17 23:23:18 UTC; windows
Archs: i386, x64
