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do3PCA: Probabilistic Phylogenetic Principal Component Analysis

Estimates probabilistic phylogenetic Principal Component Analysis (PCA) and non-phylogenetic probabilistic PCA. Provides methods to implement alternative models of trait evolution including Brownian motion (BM), Ornstein-Uhlenbeck (OU), Early Burst (EB), and Pagel's lambda. Also provides flexible biplot functions.

Version: 1.0.0
Depends: R (≥ 3.5.0), Rdimtools
Imports: ape, phytools, matrixcalc, mclust, nloptr, ratematrix, stats, utils
Published: 2024-09-24
DOI: 10.32614/CRAN.package.do3PCA
Author: Daniel Caetano ORCID iD [aut, cre]
Maintainer: Daniel Caetano <caetanods1 at gmail.com>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2.0)]
NeedsCompilation: no
In views: Phylogenetics
CRAN checks: do3PCA results

Documentation:

Reference manual: do3PCA.pdf

Downloads:

Package source: do3PCA_1.0.0.tar.gz
Windows binaries: r-devel: do3PCA_1.0.0.zip, r-release: do3PCA_1.0.0.zip, r-oldrel: do3PCA_1.0.0.zip
macOS binaries: r-release (arm64): do3PCA_1.0.0.tgz, r-oldrel (arm64): do3PCA_1.0.0.tgz, r-release (x86_64): do3PCA_1.0.0.tgz, r-oldrel (x86_64): do3PCA_1.0.0.tgz

Linking:

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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.