Uses of Class
Likelihood.Likelihood.NodeLikelihood

Packages that use Likelihood.NodeLikelihood
Alignments Provides class for dealing with "alignments" and the sites in an alignment. 
Likelihood Provides classes for calculating the likelihood of a tree given a model and an alignment. 
 

Uses of Likelihood.NodeLikelihood in Alignments
 

Methods in Alignments that return types with arguments of type Likelihood.NodeLikelihood
 ArrayMap<java.lang.String,Likelihood.NodeLikelihood> Site.getInitialNodeLikelihoods(Tree t, ArrayMap<java.lang.String,java.lang.Integer> map, SiteConstraints scon)
          Gdets initial node likelihoods based on the site, tree and any constraints.
 

Uses of Likelihood.NodeLikelihood in Likelihood
 

Methods in Likelihood that return Likelihood.NodeLikelihood
 Likelihood.NodeLikelihood Likelihood.NodeLikelihood.clone()
           
 Likelihood.NodeLikelihood Likelihood.RateLikelihood.getNodeLikelihood(java.lang.String node)
          Returns the likelihood results for a given node on the tree
 

Constructor parameters in Likelihood with type arguments of type Likelihood.NodeLikelihood
Calculator.SiteCalculator(Tree t, Probabilities tp, ArrayMap<java.lang.String,Likelihood.NodeLikelihood> nl)
          Standard constructor