Uses of Class
Likelihood.Probabilities

Packages that use Probabilities
Likelihood Provides classes for calculating the likelihood of a tree given a model and an alignment. 
 

Uses of Probabilities in Likelihood
 

Constructors in Likelihood with parameters of type Probabilities
Calculator.SiteCalculator(Site s, Tree t, SiteConstraints con, Probabilities tp)
          Constructor mainly for backwards compitability although also still used by some of the ancestral calculations.
Calculator.SiteCalculator(Tree t, Probabilities tp, ArrayMap<java.lang.String,Likelihood.NodeLikelihood> nl)
          Standard constructor