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corHMM (version 2.8)
Hidden Markov Models of Character Evolution
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)
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Install
install.packages('corHMM')
Monthly Downloads
713
Version
2.8
License
GPL (>= 2)
Maintainer
Jeremy Beaulieu
Last Published
June 13th, 2022
Functions in corHMM (2.8)
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corHMM
Hidden Rates Model
getStateMat4Dat
Produce an index matrix and legend from a dataset
makeSimmap
Simulate a character history
plotRECON
Plot ancestral state reconstructions
plotMKmodel
Plot a Markov model
ancRECON
Ancestral state reconstruction
fitCorrelationTest
Test for correlation
examples
Example datasets
getFullMat
Combines several rate class index matrices
rayDISC
Evolution of categorical traits
ConvertPhangornReconstructions
Convert phangorn reconstruction to a vector
corDISC
Correlated evolution binary traits