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| Packages that use pal.distance | |
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| pal.distance | Classes for reading and generating distance matrices, including computation of pairwise distances for sequence data (maximum-likelihood and observed distances). |
| pal.eval | Classes for evaluating evolutionary hypothesis (chi-square and likelihood criteria) and estimating model parameters. |
| pal.supgma | |
| pal.tree | Classes for providing the data structure of trees, for constructing and modifying trees, and for parameterizing trees (e.g., clock constraint). |
| Classes in pal.distance used by pal.distance | |
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| DistanceMatrix
storage for pairwise distance matrices. |
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| DistanceMatrixAccess
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| DistanceMatrixGenerator
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| DistanceParseException
exception thrown by ReadDistanceMatrix |
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| Classes in pal.distance used by pal.eval | |
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| DistanceMatrix
storage for pairwise distance matrices. |
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| Classes in pal.distance used by pal.supgma | |
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| DistanceMatrix
storage for pairwise distance matrices. |
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| DistanceMatrixAccess
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| DistanceMatrixGenerator
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| Classes in pal.distance used by pal.tree | |
|---|---|
| DistanceMatrix
storage for pairwise distance matrices. |
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| DistanceMatrixGenerator
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