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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "phybase" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'phybase: Basic functions for phylogenetic analysis'
version: '1.1'
doi: 10.32614/CRAN.package.phybase
abstract: This package provides functions to read, write, manipulate, estimate, and
  summarize phylogenetic trees including species trees which contain not only the
  topology and branch lengths but also population sizes. The input/output functions
  can read tree files in which trees are presented in parenthetic format. The trees
  are read in as a string and then transformed to a matrix which describes the relationship
  of nodes and branch lengths. The nodes matrix provides an easy access for developers
  to further manipulate the tree, while the tree string provides interface with other
  phylogenetic R packages such as "ape". The input/output functions can also be used
  to change the format of tree files between NEXUS and PHYLIP. Some basic functions
  have already been established in the package for manipulating trees such as deleting
  and swapping nodes, rooting and unrooting trees, changing the root of the tree.
  The package also includes functions such as "consensus", "coaltime, "popsize", "treedist"
  for summarizing phylogenetic trees, calculating the coalescence time, population
  size, and tree distance. The function maxtree is built in the package to esimtate
  the species tree from multiple gene trees.
authors:
- family-names: Liu
  given-names: Liang
  email: lliu@oeb.harvard.edu
repository: https://phylotastic.r-universe.dev
commit: d8ea06b72e176a07c0164e7e9f7ea66966b9f467
date-released: '2008-03-25'
contact:
- family-names: Liu
  given-names: Liang
  email: lliu@oeb.harvard.edu