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Package jebl.evolution.distances |
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Class jebl.evolution.distances.CannotBuildDistanceMatrixException extends java.lang.IllegalArgumentException implements Serializable |
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Package jebl.evolution.graphs |
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Class jebl.evolution.graphs.Graph.NoEdgeException extends java.lang.Exception implements Serializable |
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Package jebl.evolution.io |
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Class jebl.evolution.io.ImportException extends java.lang.Exception implements Serializable |
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Class jebl.evolution.io.ImportException.BadFormatException extends ImportException implements Serializable |
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Class jebl.evolution.io.ImportException.DuplicateFieldException extends ImportException implements Serializable |
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Class jebl.evolution.io.ImportException.DuplicateTaxaException extends ImportException implements Serializable |
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Class jebl.evolution.io.ImportException.MissingFieldException extends ImportException implements Serializable |
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Class jebl.evolution.io.ImportException.ShortSequenceException extends ImportException implements Serializable |
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Class jebl.evolution.io.ImportException.TooFewTaxaException extends ImportException implements Serializable |
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Class jebl.evolution.io.ImportException.UnknownTaxonException extends ImportException implements Serializable |
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Class jebl.evolution.io.ImportException.UnparsableDataException extends ImportException implements Serializable |
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Class jebl.evolution.io.NexusImporter.MissingBlockException extends ImportException implements Serializable |
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Package jebl.evolution.sequences |
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Class jebl.evolution.sequences.SequenceStateException extends java.lang.Exception implements Serializable |
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Package jebl.evolution.substmodel |
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Class jebl.evolution.substmodel.AbstractRateMatrix extends java.lang.Object implements Serializable |
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Serialized Fields |
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int dimension
double[] frequency
double[][] rate
SequenceType sequenceType
double[] parameterStore_
Class jebl.evolution.substmodel.AminoAcidModel extends AbstractRateMatrix implements Serializable |
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Class jebl.evolution.substmodel.MatrixExponential extends java.lang.Object implements Serializable |
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Serialized Fields |
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double[] Eval
double[][] Evec
double[][] Ievc
double[][] iexp
int[] ordr
double[] evali
double[][] amat
int dimension_
double[][] transProb
double cr
double ci
Class jebl.evolution.substmodel.WAG extends AminoAcidModel implements Serializable |
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Package jebl.evolution.taxa |
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Class jebl.evolution.taxa.MissingTaxonException extends java.lang.Throwable implements Serializable |
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Package jebl.math |
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Class jebl.math.MatrixCalcException extends java.lang.Exception implements Serializable |
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Class jebl.math.MatrixCalcException.NotSquareMatrixException extends MatrixCalcException implements Serializable |
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Class jebl.math.MatrixCalcException.PositiveDefiniteException extends MatrixCalcException implements Serializable |
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