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| Interface Summary | |
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| NJTreeProgressListener | |
| Class Summary | |
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| App | Hello world! |
| CheckTreeAccuracy | |
| Comparison | |
| ProgessListenerStub | |
| ResidueProperties | |
| ScoreMatrix | |
| TreeConstructor<C extends AbstractSequence<D>,D extends Compound> | Tree constructor uses the forrester tree library to build phylogenetic trees using neighbor joining algorithm. |
| Enum Summary | |
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| TreeConstructionAlgorithm | |
| TreeType | |
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