Package ubic.basecode.dataStructure.matrix

Class StringMatrix<R,C>

java.lang.Object

ubic.basecode.dataStructure.matrix.AbstractMatrix<R,C,String>

ubic.basecode.dataStructure.matrix.StringMatrix<R,C>

All Implemented Interfaces:

Serializable, Matrix2D<R,C,String>, ObjectMatrix<R,C,String>

public class StringMatrix<R,C>
extends AbstractMatrix<R,C,String>
implements ObjectMatrix<R,C,String>

A NamedMatrix containing String objects.

Author:

Paul Pavlidis

See Also:

Serialized Form

Field Summary

Fields inherited from class ubic.basecode.dataStructure.matrix.AbstractMatrix

MAX_ROWS_TO_PRINT

Constructor Summary

Constructors

Constructor	Description
StringMatrix(int x, int y)

Method Summary

Modifier and Type	Method	Description
int	columns()	Get the number of columns the matrix has.
String	get(int row, int column)
String	get(R row, C column)
String	getByKeys(R r, C c)
String[]	getColObj(int col)
String[]	getColumn(int col)
String	getEntry(int row, int column)
String	getObject(int row, int col)
String[]	getRow(int row)
boolean	isMissing(int i, int j)	Strings are considered missing if they are whitespace, null or empty.
int	rows()	Get the number of rows the matrix has
void	set(int row, int column, String value)
void	setByKeys(R r, C c, String v)
int	size()
ObjectMatrix<R,C,String>	subset(int startRow, int startCol, int numRow, int numCol)
ObjectMatrix<R,C,String>	subsetColumns(List<C> columns)
String	toString()
cern.colt.matrix.ObjectMatrix1D	viewColumn(int column)
cern.colt.matrix.ObjectMatrix1D	viewRow(int row)

Methods inherited from class ubic.basecode.dataStructure.matrix.AbstractMatrix

addColumnName, addRowName, asDoubles, assign, checkColRange, checkRowRange, containsColumnName, containsRowName, getColIndexByName, getColName, getColNames, getRowIndexByName, getRowName, getRowNameMapIterator, getRowNames, hasColNames, hasMissingValues, hasRow, hasRowNames, numMissing, setColumnName, setColumnNames, setRowName, setRowNames

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface ubic.basecode.dataStructure.matrix.Matrix2D

addColumnName, asDoubles, assign, containsColumnName, containsRowName, getColIndexByName, getColName, getColNames, getRowIndexByName, getRowName, getRowNameMapIterator, getRowNames, hasColNames, hasRow, hasRowNames, numMissing, setColumnName, setColumnNames, setRowName, setRowNames

Constructor Detail

StringMatrix

public StringMatrix(int x,
                    int y)

Method Detail

subsetColumns

public ObjectMatrix<R,C,String> subsetColumns(List<C> columns)

Specified by:

subsetColumns in interface ObjectMatrix<R,C,String>

Parameters:

columns -

Returns:

columns

public int columns()

Description copied from interface: Matrix2D

Get the number of columns the matrix has.

Specified by:

columns in interface Matrix2D<R,C,String>

Returns:

get

public String get(int row,
                  int column)

Specified by:

get in interface ObjectMatrix<R,C,String>

Parameters:

row -

column -

Returns:

get

public String get(R row,
                  C column)

getByKeys

public String getByKeys(R r,
                        C c)

Specified by:

getByKeys in interface Matrix2D<R,C,String>

getColObj

public String[] getColObj(int col)

getColumn

public String[] getColumn(int col)

Specified by:

getColumn in interface ObjectMatrix<R,C,String>

getEntry

public String getEntry(int row,
                       int column)

Specified by:

getEntry in interface Matrix2D<R,C,String>

Returns:

getObject

public String getObject(int row,
                        int col)

getRow

public String[] getRow(int row)

Specified by:

getRow in interface ObjectMatrix<R,C,String>

isMissing

public boolean isMissing(int i,
                         int j)

Strings are considered missing if they are whitespace, null or empty.

Specified by:

isMissing in interface Matrix2D<R,C,String>

Parameters:

i - row

j - column

Returns:

true if the value is missing, false otherwise.

rows

public int rows()

Description copied from interface: Matrix2D

Get the number of rows the matrix has

Specified by:

rows in interface Matrix2D<R,C,String>

Returns:

set

public void set(int row,
                int column,
                String value)

Specified by:

set in interface Matrix2D<R,C,String>

Parameters:

row -

column -

value -

setByKeys

public void setByKeys(R r,
                      C c,
                      String v)

Specified by:

setByKeys in interface Matrix2D<R,C,String>

size

public int size()

Specified by:

size in class AbstractMatrix<R,C,String>

Returns:

subset

public ObjectMatrix<R,C,String> subset(int startRow,
                                                   int startCol,
                                                   int numRow,
                                                   int numCol)

Specified by:

subset in interface ObjectMatrix<R,C,String>

Returns:

toString

public String toString()

Overrides:

toString in class Object

Returns:

java.lang.String

viewColumn

public cern.colt.matrix.ObjectMatrix1D viewColumn(int column)

Parameters:

column -

Returns:

viewRow

public cern.colt.matrix.ObjectMatrix1D viewRow(int row)

Parameters:

row -

Returns: