RevBayes

`annotateTree`

annotateTree(Tree tree, TraceTree trace, String file, Bool ages, Bool ccAges, Bool ccp, Bool conditionalAges, Probability hpd, Bool mean, Bool sampledAncestors)

tree :	Tree (pass by value)
	The input tree which will be annotated.
trace :	TraceTree (pass by reference)
	The sample trace.
file :	String (pass by value)
	The name of the file where to store the tree.
ages :	Bool (pass by value)
	Annotate node ages?
	Default : TRUE
ccAges :	Bool (pass by value)
	Annotate conditional clade ages?
	Default : FALSE
ccp :	Bool (pass by value)
	Annotate conditional clade probabilities?
	Default : FALSE
conditionalAges :	Bool (pass by value)
	Annotate node ages conditional on the input topology?
	Default : FALSE
hpd :	Probability (pass by value)
	The probability mass of the highest posterior density node age interval.
	Default : 0.95
mean :	Bool (pass by value)
	Annotate node ages using the mean age instead of the median?
	Default : TRUE
sampledAncestors :	Bool (pass by value)
	Annotate sampled ancestor probs?
	Default : FALSE

Tree