[aut, cre, cph],
Martin Brazeau
[cph]Searches for phylogenetic trees that are optimal using a user-defined criterion. Handles inapplicable data using the algorithm of Brazeau, Guillerme and Smith (2019) <doi:10.1093/sysbio/syy083>. Implements Profile Parsimony (Faith and Trueman, 2001) <doi:10.1080/10635150118627>, and Successive Approximations (Farris, 1969) <doi:10.2307/2412182>.
| Version: | 0.4.3 |
| Depends: | R (≥ 3.5.0) |
| Imports: | ape (≥ 5.0), phangorn (≥ 2.2.1), R.cache, Rdpack, stats, TreeTools (≥ 1.0.0) |
| Suggests: | knitr, rmarkdown, shiny, testthat |
| Published: | 2020-07-09 |
| Author: | Martin R. Smith
[aut, cre, cph],
Martin Brazeau
[cph] |
| Maintainer: | Martin R. Smith <martin.smith at durham.ac.uk> |
| BugReports: | https://github.com/ms609/TreeSearch/issues |
| License: | GPL (≥ 3) |
| Copyright: | Incorporates C/C++ code from Morphy Phylogenetic Library by Martin Brazeau <https://github.com/mbrazeau/MorphyLib> (GPL3) |
| URL: | https://ms609.github.io/TreeSearch, https://github.com/ms609/TreeSearch |
| NeedsCompilation: | yes |
| Language: | en-GB |
| Citation: | TreeSearch citation info |
| Materials: | NEWS |
| CRAN checks: | TreeSearch results |
| Reference manual: | TreeSearch.pdf |
| Vignettes: |
Getting started: installation and setup Tree search with inapplicable data Calculating concavity profiles for profile parsimony Tree search with profile parsimony |
| Package source: | TreeSearch_0.4.3.tar.gz |
| Windows binaries: | r-devel: TreeSearch_0.4.3.zip, r-release: TreeSearch_0.4.3.zip, r-oldrel: TreeSearch_0.4.3.zip |
| macOS binaries: | r-release: TreeSearch_0.4.3.tgz, r-oldrel: TreeSearch_0.4.3.tgz |
| Old sources: | TreeSearch archive |
| Reverse suggests: | CongreveLamsdell2016, TreeDist |
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