Title: Analysis of binary character evolution
Author: Jeremy M. Beaulieu <jbeaulieu@nimbios.org>, Jeffrey C. Oliver
Depends: ape, nloptr, numDeriv, expm, corpcor, phangorn, parallel,
Description: Fits a hidden rates model that allows different transition
rate classes on different portions of a phylogeny by treating
rate classes as hidden states in a Markov process and various
other functions for evaluating models of binary character
Packaged: 2013-05-13 15:49:42 UTC; jbeaulieu

Packaged: 2013-06-14 12:41:17 UTC; jbeaulieu

Author: Jeremy M. Beaulieu <jbeaulieu@nimbios.org>, Jeffrey C. Oliver <jeffreycoliver@gmail.com>, Brian O'Meara <bomeara@utk.edu>
Imports: expm, numDeriv, corpcor, phangorn, rgenoud
Description: Fits a hidden rates model that allows different transition rate classes on different portions of a phylogeny by treating rate classes as hidden states in a Markov process and various other functions for evaluating models of binary character evolution.
Packaged: 2013-09-23 16:02:56 UTC; jbeaulieu

Packaged: 2014-02-20 04:44:39 UTC; jbeaulieu

Packaged: 2014-07-08 15:10:04 UTC; jbeaulieu

Imports: expm, numDeriv, corpcor, phangorn, rgenoud, parallel
Packaged: 2014-09-18 03:05:55 UTC; jbeaulieu

Title: Analysis of Binary Character Evolution
Imports: expm, numDeriv, corpcor, phangorn, parallel
Packaged: 2015-04-04 19:33:50 UTC; jbeaulieu

Packaged: 2015-10-29 18:54:27 UTC; jeremybeaulieu

Packaged: 2016-01-06 20:43:44 UTC; jeremybeaulieu

Packaged: 2016-06-08 16:09:30 UTC; jeremybeaulieu

Imports: expm, numDeriv, corpcor, nnet, phangorn, parallel, Rmpfr
Description: Fits a hidden rates model that allows different transition rate
classes on different portions of a phylogeny by treating rate classes as hidden
states in a Markov process and various other functions for evaluating models of

Title: Hidden Markov Models of Character Evolution
Authors@R: c(person("Jeremy", "Beaulieu", role=c("aut", "cre"),
Imports: expm, numDeriv, corpcor, MASS, nnet, phangorn, parallel,
Description: Fits hidden Markov models of discrete character evolution which allow different transition rate classes on different portions of a phylogeny. Beaulieu et al (2013) <doi:10.1093/sysbio/syt034>.