diversitree

MaRDI QIDQ37854swMATHCRANFDO

Authors Richard G. Fitzjohn, Karen Magnuson-Ford, Emma Goldberg, Roger Sidje

Last update 20 December 2023

Copyright license GNU General Public License, version 3.0, GNU General Public License, version 2.0

Software version identifier 0.9-16, 0.9-18, 0.6-2, 0.6-3, 0.6-5, 0.7-2, 0.9-1, 0.9-3, 0.9-5, 0.9-6, 0.9-7, 0.9-8, 0.9-9, 0.9-10, 0.9-11, 0.9-13, 0.9-14, 0.9-15, 0.9-19, 0.9-20, 0.10-0

Official website https://cran.r-project.org/web/packages/diversitree/index.html

Source code repository https://github.com/cran/diversitree

Description

Contains a number of comparative 'phylogenetic' methods, mostly focusing on analysing diversification and character evolution. Contains implementations of 'BiSSE' (Binary State 'Speciation' and Extinction) and its unresolved tree extensions, 'MuSSE' (Multiple State 'Speciation' and Extinction), 'QuaSSE', 'GeoSSE', and 'BiSSE-ness' Other included methods include Markov models of discrete and continuous trait evolution and constant rate 'speciation' and extinction.

Cited in

(20)

• Modeling a trait-dependent diversification process coupled with molecular evolution on a random species tree
• phytools
• Efficient Bayesian inference of general Gaussian models on large phylogenetic trees
• Linking micro and macroevolution in the presence of migration
• BEAUti
• GEIGER
• mvMORPH
• PCMBase
• Rphylopars
• logKDE
• ratematrix
• SPLITT
• apTreeshape
• Using multitype branching models to analyze bacterial pathogenicity
• ggtree
• treeio
• The time-dependent reconstructed evolutionary process with a key-role for mass-extinction events
• hisse
• Fast likelihood calculation for multivariate Gaussian phylogenetic models with shifts
• HCTDesign

This page was built for software: diversitree