Uses of Interface
ubic.basecode.dataStructure.matrix.Matrix2D

Packages that use Matrix2D

Package	Description
ubic.basecode.datafilter
ubic.basecode.dataStructure.matrix
ubic.basecode.io.reader
ubic.basecode.io.writer

Uses of Matrix2D in ubic.basecode.datafilter

Classes in ubic.basecode.datafilter with type parameters of type Matrix2D

Modifier and Type	Class and Description
class	AbstractFilter<M extends Matrix2D<R,C,V>,R,C,V> Base implementation of the filter interface.
class	AffymetrixProbeNameFilter<M extends Matrix2D<R,C,V>,R,C,V> Remove probes that have names meeting certain rules indicating they may have low reliability.
interface	Filter<M extends Matrix2D<R,C,V>,R,C,V> An interface representing the functionality of a class that can filter 2-d matrix-based data by row-oriented criteria.
class	RowAbsentFilter<M extends Matrix2D<R,C,V>,R,C,V> Filter a data matrix according to flags given in a separate matrix.
class	RowMissingFilter<M extends Matrix2D<R,C,V>,R,C,V> Remove rows from a matrix that are missing too many points.
class	RowNameFilter<M extends Matrix2D<R,C,V>,R,C,V> Remove or retain rows that are on a list.

Uses of Matrix2D in ubic.basecode.dataStructure.matrix

Subinterfaces of Matrix2D in ubic.basecode.dataStructure.matrix

Modifier and Type	Interface and Description
interface	ObjectMatrix<R,C,V>
interface	PrimitiveMatrix<R,C,V> Matrix that holds primitives, with an available object representation of the values.

Classes in ubic.basecode.dataStructure.matrix that implement Matrix2D

Modifier and Type	Class and Description
class	AbstractMatrix<R,C,V>
class	CompressedBitMatrix<R,C> Named compressed sparse bit matrix.
class	CompressedSparseDoubleMatrix<R,C> Supports sparse matrices (where sparse means most values are zero, not that they are missing).
class	DenseDoubleMatrix<R,C> A dense matrix of doubles that knows about row and column names.
class	DoubleMatrix<R,C> Abstract base class for 2D matrices of double values with named columns and rows.
class	FastRowAccessDoubleMatrix<R,C> Dense 2D matrix implementation designed for very fast access of entire rows.
class	IntegerMatrix<R,C>
class	ObjectMatrixImpl<R,C,V> Matrix that can hold any type of object
class	SparseDoubleMatrix<R,C> A sparse matrix that knows about row and column names.
class	SparseRaggedDoubleMatrix<R,C> A sparse matrix class where the rows are ragged and compressed.
class	StringMatrix<R,C> A NamedMatrix containing String objects.

Methods in ubic.basecode.dataStructure.matrix with parameters of type Matrix2D

Modifier and Type	Method and Description
static <R,C,V> V	MatrixUtil.getObject(Matrix2D<R,C,V> matrix, int rowIndex, int colIndex)
static <R,C,V> V[]	MatrixUtil.getRow(Matrix2D<R,C,V> matrix, int rowIndex)

Uses of Matrix2D in ubic.basecode.io.reader

Classes in ubic.basecode.io.reader with type parameters of type Matrix2D

Modifier and Type	Class and Description
class	AbstractMatrixReader<M extends Matrix2D<String,String,V>,V> Abstract class representing an object that can read in a Matrix2Dfrom a file.

Uses of Matrix2D in ubic.basecode.io.writer

Methods in ubic.basecode.io.writer with parameters of type Matrix2D

Modifier and Type	Method and Description
<V> void	MatrixWriter.writeMatrix(Matrix2D<R,C,V> matrix, boolean printNames)