Rtropical: Data Analysis Tools over Space of Phylogenetic Trees Using Tropical Geometry

Process phylogenetic trees with tropical support vector machine and principal component analysis defined with tropical geometry. Details about tropical support vector machine are available in : Tang, X., Wang, H. & Yoshida, R. (2020) <doi:10.48550/arXiv.2003.00677>. Details about tropical principle component analysis are available in : Page, R., Yoshida, R. & Zhang L. (2020) <doi:10.1093/bioinformatics/btaa564> and Yoshida, R., Zhang, L. & Zhang, X. (2019) <doi:10.1007/s11538-018-0493-4>.

Version: 1.2.1
Depends: R (≥ 3.5.0)
Imports: ape, lpSolve, lpSolveAPI, parallel, Rfast, RcppAlgos, caret
Suggests: rmarkdown, knitr, e1071, testthat (≥ 3.0.0)
Published: 2021-11-09
DOI: NA
Author: Houjie Wang [aut, cre], Kaizhang Wang [aut], Grady Weyenberg [aut], Xiaoxian Tang [aut], Ruriko Yoshida [aut]
Maintainer: Houjie Wang <wanghoujie6688 at gmail.com>
License: GPL-3
URL: https://github.com/HoujieWang/Rtropical
NeedsCompilation: no
Materials: README NEWS
CRAN checks: Rtropical results

Documentation:

Reference manual: Rtropical.pdf
Vignettes: usage

Downloads:

Package source: Rtropical_1.2.1.tar.gz
Windows binaries: r-devel: Rtropical_1.2.1.zip, r-release: Rtropical_1.2.1.zip, r-oldrel: Rtropical_1.2.1.zip
macOS binaries: r-release (arm64): Rtropical_1.2.1.tgz, r-oldrel (arm64): Rtropical_1.2.1.tgz, r-release (x86_64): Rtropical_1.2.1.tgz, r-oldrel (x86_64): Rtropical_1.2.1.tgz

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