phylowise: Phylogenetic Pairwise Contrasts

A phylogenetic comparative method for finding associations between biological traits and molecular evolutionary rates. The method samples pairs from a phylogeny such that each pair has non-overlapping edge paths, and can therefore be treated as statistically independent observations. Linear regression is performed on the pair contrasts. This approach is similar to phylogenetically independent contrasts (PIC) but without reconstructing the traits at internal nodes, and is better suited for finding trait-rate associations than phylogenetic generalised least squares (PGLS). Refer to Douglas and Bromham (2026) <doi:10.64898/2026.08.13.744736> for further details.

Version:	0.0.1
Depends:	ape, BMA, phylotate
Imports:	Rcpp
LinkingTo:	Rcpp
Published:	2026-08-21
DOI:	10.32614/CRAN.package.phylowise (may not be active yet)
Author:	Jordan Douglas [aut, cre], Lindell Bromham [aut]
Maintainer:	Jordan Douglas <jordan.douglas at auckland.ac.nz>
License:	GPL (≥ 3)
URL:	https://github.com/jordandouglas/phylowise
NeedsCompilation:	yes
Citation:	phylowise citation info
CRAN checks:	phylowise results

Documentation:

Reference manual:

phylowise.html , phylowise.pdf

Downloads:

Package source:	phylowise_0.0.1.tar.gz
Windows binaries:	r-devel: not available, r-release: not available, r-oldrel: not available
macOS binaries:	r-release (arm64): phylowise_0.0.1.tgz, r-oldrel (arm64): phylowise_0.0.1.tgz, r-release (x86_64): phylowise_0.0.1.tgz, r-oldrel (x86_64): not available

Linking:

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