PhylogeneticEM

CRANPhylogeneticEMMaRDI QIDQ98164FDOQ98164

Automatic Shift Detection using a Phylogenetic EM

Paul Bastide

Last update: 31 January 2024

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

Software version identifier: 1.6.0, 1.0.0, 1.0.1, 1.1.0, 1.2.1, 1.3.0, 1.4.0, 1.5.0, 1.7.0

Description

Implementation of the automatic shift detection method for Brownian Motion (BM) or Ornstein–Uhlenbeck (OU) models of trait evolution on phylogenies. Some tools to handle equivalent shifts configurations are also available. See Bastide et al. (2017) <doi:10.1111/rssb.12206> and Bastide et al. (2018) <doi:10.1093/sysbio/syy005>.

Cites work

• Detection of Adaptive Shifts on Phylogenies by using Shifted Stochastic Processes on a Tree
• Inference of Adaptive Shifts for Multivariate Correlated Traits

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