Package org.ujmp.core.graphmatrix
Class DefaultGraphMatrix<N,E>
java.lang.Object
java.lang.Number
org.ujmp.core.AbstractMatrix
org.ujmp.core.genericmatrix.stub.AbstractGenericMatrix<A>
org.ujmp.core.genericmatrix.stub.AbstractSparseGenericMatrix<A>
org.ujmp.core.genericmatrix.stub.AbstractSparseGenericMatrix2D<E>
org.ujmp.core.graphmatrix.AbstractGraphMatrix<N,E>
org.ujmp.core.graphmatrix.DefaultGraphMatrix<N,E>
- All Implemented Interfaces:
Serializable
,Cloneable
,Comparable<Matrix>
,HasMetaData
,BaseMatrix
,BooleanCalculations
,CanPerformCalculations
,DenseMatrix
,DenseMatrix2D
,DenseMatrixMultiD
,BasicDoubleCalculations
,DoubleCalculations
,BasicEntrywiseDoubleCalculations
,CreatorDoubleCalculations
,EntrywiseDoubleCalculations
,HyperbolicDoubleCalculations
,MiscEntrywiseDoubleCalculations
,RoundingDoubleCalculations
,TrigonometricDoubleCalculations
,DecompositionDoubleCalculations
,DiscretizeCalculations
,GeneralDoubleCalculations
,MiscGeneralDoubleCalculations
,MissingValueDoubleCalculations
,StatisticalDoubleCalculations
,BaseGenericMatrix<E>
,DenseGenericMatrix<E>
,DenseGenericMatrix2D<E>
,DenseGenericMatrixMultiD<E>
,GenericMatrix<E>
,GenericMatrix2D<E>
,GenericMatrixMultiD<E>
,SparseGenericMatrix<E>
,SparseGenericMatrix2D<E>
,SparseGenericMatrixMultiD<E>
,GraphMatrix<N,
,E> BaseMatrixProperties
,Clearable
,Conversions
,CoordinateFunctions
,CoreObject
,DistanceMeasures
,ExtendedMatrixProperties
,GettersAndSetters
,HasDescription
,HasGUIObject
,HasId
,HasLabel
,IntCalculations
,Matrix
,Matrix2D
,MatrixMultiD
,ObjectCalculations
,SparseMatrix
,SparseMatrix2D
,SparseMatrixMultiD
,StringCalculations
- See Also:
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Field Summary
FieldsModifier and TypeFieldDescriptionprivate boolean
private final Map<Coordinates,
E> private static final long
Fields inherited from class org.ujmp.core.AbstractMatrix
guiObject, size
Fields inherited from interface org.ujmp.core.BaseMatrix
ALL, COLUMN, LINK, NEW, NONE, ORIG, ROW, X, Y, Z
Fields inherited from interface org.ujmp.core.DenseMatrix
Factory
Fields inherited from interface org.ujmp.core.DenseMatrix2D
Factory
Fields inherited from interface org.ujmp.core.interfaces.HasDescription
DESCRIPTION
Fields inherited from interface org.ujmp.core.annotation.HasMetaData
DIMENSIONMETADATA
Fields inherited from interface org.ujmp.core.Matrix
chol, divideMatrix, divideScalar, eig, Factory, inv, lu, minusMatrix, minusScalar, mtimes, plusMatrix, plusScalar, qr, solve, svd, timesMatrix, timesScalar, transpose
Fields inherited from interface org.ujmp.core.SparseMatrix
Factory
Fields inherited from interface org.ujmp.core.SparseMatrix2D
Factory
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Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionvoid
Iterable<long[]>
Returns an Iterator that only goes over the coordinates in the Matrix that are stored.void
clear()
int
getChildCount
(long nodeIndex) getChildIndices
(long index) getEdge
(long nodeIndex1, long nodeIndex2) int
getNode
(long index) int
int
getParentCount
(long nodeIndex) getParentIndices
(long index) boolean
void
removeEdge
(long nodeIndex1, long nodeIndex2) void
removeEdge
(E edge) void
removeEdge
(N node1, N node2) void
removeNode
(long node) void
removeNode
(N o) void
setDirected
(boolean directed) void
void
void
Methods inherited from class org.ujmp.core.graphmatrix.AbstractGraphMatrix
containsCoordinates, getChildCount, getChildIndices, getChildren, getChildren, getDegree, getDegree, getEdge, getEdgesToChildren, getEdgesToParents, getIndexOfNode, getObject, getObject, getParentCount, getParentIndices, getParents, getParents, getSize, getValueCount, isConnected, isConnected, setObject, setObject
Methods inherited from class org.ujmp.core.genericmatrix.stub.AbstractSparseGenericMatrix2D
getDimensionCount, getObject, setObject
Methods inherited from class org.ujmp.core.genericmatrix.stub.AbstractSparseGenericMatrix
isSparse
Methods inherited from class org.ujmp.core.genericmatrix.stub.AbstractGenericMatrix
getAsObject, setAsObject
Methods inherited from class org.ujmp.core.AbstractMatrix
abs, addMissing, allCoordinates, allValues, and, and, append, appendHorizontally, appendVertically, atimes, bigDecimalValue, bigIntegerValue, booleanValue, bootstrap, bootstrap, ceil, center, charValue, chebyshevDistanceTo, chol, clone, compareTo, containsBigDecimal, containsBigInteger, containsBoolean, containsByte, containsChar, containsDate, containsDouble, containsFloat, containsInt, containsLong, containsMissingValues, containsNull, containsObject, containsShort, containsString, convert, convertEncoding, corrcoef, cos, cosh, cosineSimilarity, cosineSimilarityTo, countMissing, cov, cumprod, cumsum, dateValue, delete, delete, delete, deleteColumns, deleteColumns, deleteColumnsWithMissingValues, deleteRows, deleteRows, deleteRowsWithMissingValues, det, diag, diff, discretize, discretize, discretizeToBoolean, discretizeToColumns, divide, divide, divide, divide, doubleValue, eig, eigSymm, eq, eq, equals, equalsAnnotation, equalsContent, euklideanDistance, euklideanDistanceTo, exp, exportTo, extractAnnotation, eye, fadeIn, fadeOut, fill, fireValueChanged, fireValueChanged, fireValueChanged, flipdim, floatValue, floor, ge, ge, getAbsoluteValueMean, getAbsoluteValueSum, getAsBigDecimal, getAsBigInteger, getAsBoolean, getAsByte, getAsByteArray, getAsChar, getAsDate, getAsDouble, getAsFloat, getAsInt, getAsLong, getAsMatrix, getAsShort, getAsString, getColumnCount, getColumnForLabel, getColumnLabel, getColumnList, getCoordinatesOfMaximum, getCoordinatesOfMinimum, getCoreObjectId, getDescription, getDimensionLabel, getDimensionMetaData, getEuklideanValue, getFactory, getGUIObject, getId, getLabel, getLabelObject, getMaxValue, getMeanValue, getMetaData, getMetaData, getMetaDataDimensionMatrix, getMetaDataDouble, getMetaDataMatrix, getMetaDataString, getMinValue, getPositionForLabel, getPreferredObject, getRMS, getRowCount, getRowForLabel, getRowLabel, getRowList, getSize, getStdValue, getValueSum, getZCount, ginv, grayScale, gt, gt, importFrom, impute, includeAnnotation, indexOfMax, indexOfMin, intValue, inv, invSPD, invSymm, isColumnVector, isDiagonal, isEmpty, isMultidimensionalMatrix, isReadOnly, isResizable, isRowVector, isScalar, isSingular, isSPD, isSquare, isSymmetric, isTransient, le, le, log, log10, log2, logistic, longValue, lowerCase, lt, lt, lu, manhattenDistance, manhattenDistanceTo, max, mean, min, minkowskiDistance, minkowskiDistanceTo, minus, minus, minus, minus, mtimes, mtimes, mutualInf, nans, ne, ne, nonZeroCoordinates, norm1, norm2, normalize, normF, normInf, not, ones, or, or, pairedTTest, pdet, pinv, pinv, plus, plus, plus, plus, power, power, princomp, prod, qr, rand, randn, rank, removePunctuation, removeWords, replace, replaceMissingBy, replaceRegex, replaceRegex, reshape, round, save, save, select, select, select, selectColumns, selectColumns, selectedCoordinates, selectedCoordinates, selectRows, selectRows, setAsBigDecimal, setAsBigInteger, setAsBoolean, setAsByte, setAsByteArray, setAsChar, setAsDate, setAsDouble, setAsFloat, setAsInt, setAsLong, setAsMatrix, setAsShort, setAsString, setColumnLabel, setContent, setDescription, setDimensionLabel, setDimensionMetaData, setId, setLabel, setMetaData, setMetaData, setMetaDataDimensionMatrix, setRowLabel, setSize, share, share, showGUI, shuffle, sign, sin, sinh, solve, solveSPD, solveSymm, sortrows, sqrt, squeeze, standardize, std, stem, stringValue, subMatrix, sum, svd, svd, swap, tan, tanh, tanh, tfIdf, times, times, times, times, toBigDecimalArray, toBigDecimalMatrix, toBigIntegerArray, toBigIntegerMatrix, toBooleanArray, toBooleanMatrix, toByteArray, toByteMatrix, toCharArray, toCharMatrix, toColumnVector, toDateArray, toDoubleArray, toDoubleMatrix, toFloatArray, toFloatMatrix, toHtml, toIntArray, toIntMatrix, toListMatrix, toLongArray, toLongMatrix, toMapMatrix, toObjectArray, toObjectMatrix, toRowVector, toSetMatrix, toShortArray, toShortMatrix, toString, toStringArray, toStringMatrix, trace, translate, transpose, transpose, transpose, tril, triu, unique, uniqueValueCount, upperCase, var, xor, xor, zeros
Methods inherited from class java.lang.Number
byteValue, shortValue
Methods inherited from class java.lang.Object
finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
Methods inherited from interface org.ujmp.core.BaseMatrix
getFactory
Methods inherited from interface org.ujmp.core.interfaces.BaseMatrixProperties
allValues, equals, equalsAnnotation, equalsContent, getColumnCount, getColumnList, getDimensionCount, getRowCount, getRowList, getSize, getZCount, isColumnVector, isDiagonal, isEmpty, isMultidimensionalMatrix, isReadOnly, isResizable, isRowVector, isScalar, isSingular, isSparse, isSquare, isSymmetric, isTransient, setSize, toString
Methods inherited from interface org.ujmp.core.doublematrix.calculation.basic.BasicDoubleCalculations
atimes, divide, divide, divide, divide, minus, minus, minus, minus, mtimes, mtimes, plus, plus, plus, plus, times, times, times, times
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.basic.BasicEntrywiseDoubleCalculations
abs, exp, log, log10, log2, logistic, power, power, sign, sqrt
Methods inherited from interface org.ujmp.core.booleanmatrix.calculation.BooleanCalculations
and, and, eq, eq, ge, ge, gt, gt, le, le, lt, lt, ne, ne, not, or, or, xor, xor
Methods inherited from interface java.lang.Comparable
compareTo
Methods inherited from interface org.ujmp.core.interfaces.Conversions
toBigDecimalMatrix, toBigIntegerMatrix, toBooleanMatrix, toByteMatrix, toCharMatrix, toDoubleMatrix, toFloatMatrix, toIntMatrix, toListMatrix, toLongMatrix, toMapMatrix, toObjectMatrix, toSetMatrix, toShortMatrix, toStringMatrix
Methods inherited from interface org.ujmp.core.interfaces.CoordinateFunctions
allCoordinates, getCoordinatesOfMaximum, getCoordinatesOfMinimum, nonZeroCoordinates, selectedCoordinates, selectedCoordinates
Methods inherited from interface org.ujmp.core.interfaces.CoreObject
getCoreObjectId
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.creators.CreatorDoubleCalculations
eye, nans, ones, rand, randn, zeros
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.decomposition.DecompositionDoubleCalculations
chol, eig, eigSymm, ginv, inv, invSPD, invSymm, lu, pinv, pinv, princomp, qr, solve, solveSPD, solveSymm, svd, svd
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.discretize.DiscretizeCalculations
discretize, discretize, discretizeToBoolean, discretizeToColumns
Methods inherited from interface org.ujmp.core.interfaces.DistanceMeasures
chebyshevDistanceTo, cosineSimilarity, cosineSimilarityTo, euklideanDistance, euklideanDistanceTo, manhattenDistance, manhattenDistanceTo, minkowskiDistance, minkowskiDistanceTo
Methods inherited from interface org.ujmp.core.interfaces.ExtendedMatrixProperties
bigDecimalValue, bigIntegerValue, booleanValue, byteValue, charValue, containsBigDecimal, containsBigInteger, containsBoolean, containsByte, containsChar, containsDate, containsDouble, containsFloat, containsInt, containsLong, containsMissingValues, containsNull, containsObject, containsShort, containsString, dateValue, det, doubleValue, floatValue, getAbsoluteValueMean, getAbsoluteValueSum, getEuklideanValue, getMaxValue, getMeanValue, getMinValue, getRMS, getStdValue, getValueSum, intValue, isSPD, longValue, norm1, norm2, normF, normInf, pdet, rank, setContent, shortValue, stringValue, trace
Methods inherited from interface org.ujmp.core.interfaces.GettersAndSetters
getAsBigDecimal, getAsBigInteger, getAsBoolean, getAsByte, getAsByteArray, getAsChar, getAsDate, getAsDouble, getAsFloat, getAsInt, getAsLong, getAsMatrix, getAsObject, getAsShort, getAsString, getPreferredObject, setAsBigDecimal, setAsBigInteger, setAsBoolean, setAsByte, setAsByteArray, setAsChar, setAsDate, setAsDouble, setAsFloat, setAsInt, setAsLong, setAsMatrix, setAsObject, setAsShort, setAsString, toBigDecimalArray, toBigIntegerArray, toBooleanArray, toByteArray, toCharArray, toDateArray, toDoubleArray, toFloatArray, toIntArray, toLongArray, toObjectArray, toShortArray, toStringArray
Methods inherited from interface org.ujmp.core.interfaces.HasDescription
getDescription, setDescription
Methods inherited from interface org.ujmp.core.interfaces.HasGUIObject
getGUIObject, showGUI
Methods inherited from interface org.ujmp.core.interfaces.HasLabel
getLabel, getLabelObject, setLabel
Methods inherited from interface org.ujmp.core.annotation.HasMetaData
getColumnForLabel, getColumnLabel, getDimensionLabel, getDimensionMetaData, getMetaData, getMetaData, getMetaDataDimensionMatrix, getMetaDataDouble, getMetaDataMatrix, getMetaDataString, getPositionForLabel, getRowForLabel, getRowLabel, setColumnLabel, setDimensionLabel, setDimensionMetaData, setMetaData, setMetaData, setMetaDataDimensionMatrix, setRowLabel
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.hyperbolic.HyperbolicDoubleCalculations
cosh, sinh, tanh, tanh
Methods inherited from interface org.ujmp.core.Matrix
clone, exportTo, fireValueChanged, fireValueChanged, fireValueChanged, importFrom, save, save, share, share, toHtml
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.misc.MiscEntrywiseDoubleCalculations
grayScale
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.misc.MiscGeneralDoubleCalculations
append, appendHorizontally, appendVertically, center, fadeIn, fadeOut, normalize, replaceMissingBy, standardize
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.missingvalues.MissingValueDoubleCalculations
addMissing, countMissing, deleteColumnsWithMissingValues, deleteRowsWithMissingValues, impute
Methods inherited from interface org.ujmp.core.objectmatrix.calculation.ObjectCalculations
bootstrap, bootstrap, convert, delete, delete, delete, deleteColumns, deleteColumns, deleteRows, deleteRows, diag, extractAnnotation, fill, flipdim, includeAnnotation, replace, reshape, select, select, select, selectColumns, selectColumns, selectRows, selectRows, shuffle, sortrows, squeeze, subMatrix, swap, toColumnVector, toRowVector, transpose, transpose, transpose, tril, triu, unique, uniqueValueCount
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.rounding.RoundingDoubleCalculations
ceil, floor, round
Methods inherited from interface org.ujmp.core.doublematrix.calculation.general.statistical.StatisticalDoubleCalculations
corrcoef, cov, cumprod, cumsum, diff, indexOfMax, indexOfMin, max, mean, min, mutualInf, pairedTTest, prod, std, sum, var
Methods inherited from interface org.ujmp.core.stringmatrix.calculation.StringCalculations
convertEncoding, lowerCase, removePunctuation, removeWords, replaceRegex, replaceRegex, stem, tfIdf, translate, upperCase
Methods inherited from interface org.ujmp.core.doublematrix.calculation.entrywise.trigonometric.TrigonometricDoubleCalculations
cos, sin, tan
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Field Details
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serialVersionUID
private static final long serialVersionUID- See Also:
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directed
private boolean directed -
nodes
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edges
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parents
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children
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Constructor Details
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DefaultGraphMatrix
public DefaultGraphMatrix() -
DefaultGraphMatrix
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Method Details
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getEdgeList
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availableCoordinates
Description copied from interface:CoordinateFunctions
Returns an Iterator that only goes over the coordinates in the Matrix that are stored. For most Matrices, this is the same as allCoordinates(). For sparse Matrices, it iterates only over the entries in it.- Specified by:
availableCoordinates
in interfaceCoordinateFunctions
- Overrides:
availableCoordinates
in classAbstractGraphMatrix<N,
E> - Returns:
- Iterable over the saved entries in a Matrix.
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getNodeList
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addNode
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removeNode
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getEdgeCount
public int getEdgeCount() -
getNodeCount
public int getNodeCount() -
clear
public void clear() -
getChildCount
public int getChildCount(long nodeIndex) -
getNode
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getParentCount
public int getParentCount(long nodeIndex) -
getParentIndices
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getChildIndices
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removeNode
public void removeNode(long node) -
isDirected
public boolean isDirected() -
setDirected
public void setDirected(boolean directed) -
setNode
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setEdge
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setEdge
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getValueType
- Specified by:
getValueType
in interfaceBaseMatrixProperties
- Overrides:
getValueType
in classAbstractMatrix
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getEdge
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removeEdge
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removeEdge
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removeEdge
public void removeEdge(long nodeIndex1, long nodeIndex2)
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