| Interface | Description |
|---|---|
| CharacterStateMatrix<S> | |
| DistanceMatrix | |
| DistanceMatrixParser | |
| DistanceMethod |
| Class | Description |
|---|---|
| BasicCharacterStateMatrix<S> | |
| BasicSymmetricalDistanceMatrix | |
| DiscreteState | |
| DolloParsimony | |
| FitchParsimony<STATE_TYPE> | |
| NeighborJoining | |
| SankoffParsimony<STATE_TYPE> | |
| SymmetricalDistanceMatrixParser | |
| TestPhylogenyReconstruction |
| Enum | Description |
|---|---|
| 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 |