Package org.forester.phylogenyinference

Interface Summary
CharacterStateMatrix<S>  
DistanceMatrix  
DistanceMatrixParser  
DistanceMethod  
 

Class Summary
BasicCharacterStateMatrix<S>  
BasicSymmetricalDistanceMatrix  
DiscreteState  
DolloParsimony  
FitchParsimony<STATE_TYPE>  
NeighborJoining  
SankoffParsimony<STATE_TYPE>  
SymmetricalDistanceMatrixParser  
TestPhylogenyReconstruction  
 

Enum Summary
CharacterStateMatrix.BinaryStates It is crucial that the order ABSENT, UNKNOWN, PRESENT not be changes since this determines the sort order.
CharacterStateMatrix.Format  
CharacterStateMatrix.GainLossStates  
CharacterStateMatrix.NucleotideStates  
DistanceMatrix.Format  
SymmetricalDistanceMatrixParser.InputMatrixType