threshDIC {phytools} | R Documentation |
This function computes the Deviance Information Criterion from the MCMC object returned by ancThresh
.
threshDIC(tree, x, mcmc, burnin=NULL, sequence=NULL, method="pD")
tree |
phylogenetic tree. |
x |
a named vector containing discrete character states; or a matrix containing the tip species, in rows, and probabilities of being in each state, in columns. |
mcmc |
list object returned by |
burnin |
number of generations (not samples) to exclude as burn in; if not supplied then 20 percent of generations are excluded. |
sequence |
assumed ordering of the discrete character state. If not supplied and |
method |
method for computing the effective number of parameters (options are |
A vector containing the mean deviance and deviance for the parameter means, the effective number of parameters, and the DIC.
Liam Revell liam.revell@umb.edu
Revell, L. J. (2012) phytools: An R package for phylogenetic comparative biology (and other things). Methods Ecol. Evol., 3, 217-223.
Revell, L. J. (2014) Ancestral character estimation under the threshold model from quantitative genetics. Evolution, bold68, 743-759.