BAMMtools: Analysis and Visualization of Macroevolutionary Dynamics on Phylogenetic Trees

Provides functions for analyzing and visualizing complex macroevolutionary dynamics on phylogenetic trees. It is a companion package to the command line program BAMM (Bayesian Analysis of Macroevolutionary Mixtures) and is entirely oriented towards the analysis, interpretation, and visualization of evolutionary rates. Functionality includes visualization of rate shifts on phylogenies, estimating evolutionary rates through time, comparing posterior distributions of evolutionary rates across clades, comparing diversification models using Bayes factors, and more.

Version:	2.1.12
Depends:	ape, R (≥ 2.10)
Imports:	Rcpp (≥ 0.11.0), gplots, methods
Suggests:	parallel
Published:	2024-09-12
DOI:	10.32614/CRAN.package.BAMMtools
Author:	Dan Rabosky [aut], Michael Grundler [aut], Pascal Title [aut, cre], Carlos Anderson [aut], Jeff Shi [aut], Joseph Brown [aut], Huateng Huang [aut], Jon Mitchell [aut]
Maintainer:	Pascal Title <ptitle at umich.edu>
License:	GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
URL:	http://bamm-project.org/
NeedsCompilation:	yes
Citation:	BAMMtools citation info
In views:	Phylogenetics
CRAN checks:	BAMMtools results

Documentation:

Reference manual:

BAMMtools.html , BAMMtools.pdf

Downloads:

Package source:	BAMMtools_2.1.12.tar.gz
Windows binaries:	r-devel: BAMMtools_2.1.12.zip, r-release: BAMMtools_2.1.12.zip, r-oldrel: BAMMtools_2.1.12.zip
macOS binaries:	r-release (arm64): BAMMtools_2.1.12.tgz, r-oldrel (arm64): BAMMtools_2.1.12.tgz, r-release (x86_64): BAMMtools_2.1.12.tgz, r-oldrel (x86_64): BAMMtools_2.1.12.tgz
Old sources:	BAMMtools archive

Reverse dependencies:

Reverse imports:	deepSTRAPP, EloOptimized, GD, TENET
Reverse suggests:	binst, evolved

Linking:

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