Package: TBRDist
Title: Rearrangement Distances Between Phylogenetic Trees
Version: 2.0.0
Authors@R: c(person("Martin R.", 'Smith',
                  email = "martin.smith@durham.ac.uk", 
                  role = c("aut", "cre", "cph"), 
                  comment = c(ORCID = "0000-0001-5660-1727", GitHub = "ms609")),
               person(given = "Chris", family = "Whidden",
                  email = "cwhidden@fredhutch.org", role = c("cph"),
                  comment = c("rspr, uspr", GitHub = "cwhidden"))
            )
License: GPL (>= 3)
Copyright: Underlying C++ code copyright 2009-2021 Chris Whidden.
Description: Fast calculation of tree rearrangement distances. For
        unrooted trees: Subtree Prune and Regraft (SPR), Tree Bisection
        and Reconnection (TBR), and Replug distances, using the
        algorithms of Whidden and Matsen (2017)
        <doi:10.48550/arXiv.1511.07529>. For rooted trees: rooted SPR
        (rSPR) distance, using the fixed-parameter algorithms of
        Whidden, Beiko, and Zeh (2013) <doi:10.1137/110845045>.
URL: https://ms609.github.io/TBRDist/,
        https://github.com/ms609/TBRDist/,
        https://github.com/cwhidden/uspr/,
        https://github.com/cwhidden/rspr/
BugReports: https://github.com/ms609/TBRDist/issues/
SystemRequirements: C++17
Depends: R (>= 3.6.0)
Imports: ape, Rdpack, TreeDist, TreeTools (>= 2.2.0),
Suggests: knitr, rmarkdown, testthat,
LinkingTo: BH, Rcpp, TreeTools,
Config/Needs/check: rcmdcheck, testthat
Config/Needs/coverage: covr
Config/Needs/memcheck: testthat
RdMacros: Rdpack
VignetteBuilder: knitr
ByteCompile: true
Encoding: UTF-8
X-schema.org-keywords: phylogenetics, tree-distance
Language: en-GB
RoxygenNote: 7.3.3
Roxygen: list(markdown = TRUE)
Config/pak/sysreqs: cmake make libuv1-dev zlib1g-dev
Repository: https://phylotastic.r-universe.dev
Date/Publication: 2026-04-17 13:00:47 UTC
RemoteUrl: https://github.com/ms609/TBRDist
RemoteRef: HEAD
RemoteSha: e609ef2d32a012e45252bda40884c3b8a4c5988a
NeedsCompilation: yes
Packaged: 2026-06-23 23:48:25 UTC; root
Author: Martin R. Smith [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0001-5660-1727>, GitHub: ms609),
  Chris Whidden [cph] (rspr, uspr, GitHub: cwhidden)
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>