net.maizegenetics.taxa.distance

Class DistanceMatrixBuilder

net.maizegenetics.taxa.distance.DistanceMatrixBuilder

public class DistanceMatrixBuilder

Field Detail

MATRIX_TYPE

public static java.lang.String MATRIX_TYPE

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Constant Field Values

MATRIX_ALGORITHM_VARIATION

public static java.lang.String MATRIX_ALGORITHM_VARIATION

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Constant Field Values

CENTERED_IBS_SUMPK

public static java.lang.String CENTERED_IBS_SUMPK

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Constant Field Values

IBS_DISTANCE_MATRIX_TYPE

public static java.lang.String IBS_DISTANCE_MATRIX_TYPE

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Constant Field Values

IBS_DISTANCE_MATRIX_NUM_ALLELES

public static java.lang.String IBS_DISTANCE_MATRIX_NUM_ALLELES

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Constant Field Values

IBS_DISTANCE_MATRIX_AVE_TOTAL_SITES

public static java.lang.String IBS_DISTANCE_MATRIX_AVE_TOTAL_SITES

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Constant Field Values

IBS_DISTANCE_MATRIX_TRUE_IBS

public static java.lang.String IBS_DISTANCE_MATRIX_TRUE_IBS

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Constant Field Values

Method Detail

getInstance

public static DistanceMatrixBuilder getInstance(TaxaList taxa)

getInstance

public static DistanceMatrixBuilder getInstance(int numTaxa)

set

public void set(int x,
                int y,
                float value)

set

public void set(int x,
                int y,
                double value)

addTaxon

public void addTaxon(Taxon taxon)

annotation

public DistanceMatrixBuilder annotation(GeneralAnnotation annotation)

setCount

public void setCount(int x,
                     int y,
                     int value)

build

public DistanceMatrix build()