RevBayes

dnPhyloCTMCDASiteIID(Tree tree, RateGenerator Q, Simplex rootFrequencies, RealPos branchRates, RealPos[] siteRates, Probability pInv, Natural nSites, String type, Bool treatAmbiguousAsGap, String coding)

tree :	Tree (pass by const reference)
	The tree along which the process evolves.
Q :	RateGenerator (pass by const reference)
	The global or branch-specific rate matrices.
rootFrequencies :	Simplex (pass by const reference)
	The root specific frequencies of the characters, if applicable.
	Default : NULL
branchRates :	RealPos (pass by const reference)
	The global or branch-specific rate multipliers.
	Default : 1
siteRates :	RealPos[] (pass by const reference)
	The rate categories for the sites.
	Default : [ ]
pInv :	Probability (pass by const reference)
	The probability of a site being invariant.
	Default : 0
nSites :	Natural (pass by value)
	The number of sites, used for simulation.
	Default : 10
type :	String (pass by value)
	The data type, used for simulation and initialization.
	Default : DNA
	Options : DNA\|RNA\|AA\|PoMo\|Protein\|Standard\|NaturalNumbers\|Restriction
treatAmbiguousAsGap :	Bool (pass by value)
	Should we treat ambiguous characters as gaps/missing?
	Default : FALSE
coding :	String (pass by value)

	Default : all

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