public final class PairwiseDistanceCalculator
extends java.lang.Object
Modifier and Type | Class | Description |
---|---|---|
static class |
PairwiseDistanceCalculator.PWD_DISTANCE_METHOD |
Modifier and Type | Field | Description |
---|---|---|
static double |
DEFAULT_VALUE_FOR_TOO_LARGE_DISTANCE_FOR_KIMURA_FORMULA |
Modifier and Type | Method | Description |
---|---|---|
static BasicSymmetricalDistanceMatrix |
calcFractionalDissimilarities(Msa msa) |
|
static BasicSymmetricalDistanceMatrix |
calcKimuraDistances(Msa msa) |
|
static BasicSymmetricalDistanceMatrix |
calcKimuraDistances(Msa msa,
double value_for_too_large_distance_for_kimura_formula) |
|
static BasicSymmetricalDistanceMatrix |
calcPoissonDistances(Msa msa) |
|
java.lang.Object |
clone() |
public static final double DEFAULT_VALUE_FOR_TOO_LARGE_DISTANCE_FOR_KIMURA_FORMULA
public java.lang.Object clone() throws java.lang.CloneNotSupportedException
clone
in class java.lang.Object
java.lang.CloneNotSupportedException
public static BasicSymmetricalDistanceMatrix calcFractionalDissimilarities(Msa msa)
public static BasicSymmetricalDistanceMatrix calcPoissonDistances(Msa msa)
public static BasicSymmetricalDistanceMatrix calcKimuraDistances(Msa msa)
public static BasicSymmetricalDistanceMatrix calcKimuraDistances(Msa msa, double value_for_too_large_distance_for_kimura_formula)