Uses of Package
ubic.gemma.core.datastructure.matrix

Packages that use ubic.gemma.core.datastructure.matrix

Package	Description
ubic.gemma.core.analysis.expression.coexpression.links
ubic.gemma.core.analysis.expression.diff
ubic.gemma.core.analysis.preprocess	This package contains classes for preprocessing expression data.
ubic.gemma.core.analysis.preprocess.batcheffects
ubic.gemma.core.analysis.preprocess.convert	Convert data from one QuantitationType to another.
ubic.gemma.core.analysis.preprocess.detect	This package contains classes for detecting and linting expression data.
ubic.gemma.core.analysis.preprocess.filter
ubic.gemma.core.analysis.preprocess.svd
ubic.gemma.core.analysis.service
ubic.gemma.core.analysis.singleCell.aggregate	This packge contains classes for splitting and aggregating single-cell data.
ubic.gemma.core.datastructure.matrix	This package contains data structures for representing matrices of gene expression.
ubic.gemma.core.datastructure.matrix.io	This package contains I/O utilities for reading and writing expression data matrices.
ubic.gemma.core.loader.expression	This package contains interfaces and classes for loading expression data.
ubic.gemma.persistence.service.expression.experiment

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.expression.coexpression.links

Class	Description
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.
ExpressionDataMatrixRowElement	Encapsulates information about the row 'label' for a ExpressionDataMatrix.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.expression.diff

Class	Description
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.preprocess

Class	Description
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.preprocess.batcheffects

Class	Description
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.preprocess.convert

Class	Description
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.preprocess.detect

Class	Description
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.
ExpressionDataMatrix	Represents a matrix of data from an ExpressionExperiment.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.preprocess.filter

Class	Description
ExpressionDataBooleanMatrix	Matrix of booleans mapped from an ExpressionExperiment.
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.preprocess.svd

Class	Description
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.service

Class	Description
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.analysis.singleCell.aggregate

Class	Description
BulkExpressionDataMatrix	Interface for bulk expression data matrices.
SingleCellExpressionDataMatrix	In a single-cell expression data matrix, each column represents a cell.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.datastructure.matrix

Class	Description
BaseExpressionDataMatrix	Base class for ExpressionDataMatrix implementations.
BulkExpressionDataMatrix	Interface for bulk expression data matrices.
ExpressionDataBooleanMatrix	Matrix of booleans mapped from an ExpressionExperiment.
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.
ExpressionDataMatrix	Represents a matrix of data from an ExpressionExperiment.
ExpressionDataMatrixRowElement	Encapsulates information about the row 'label' for a ExpressionDataMatrix.
ExpressionDataPrimitiveDoubleMatrix	Interface for matrices that can provide unboxed doubles.
ExpressionDataPrimitiveIntMatrix
SingleCellExpressionDataMatrix	In a single-cell expression data matrix, each column represents a cell.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.datastructure.matrix.io

Class	Description
BulkExpressionDataMatrix	Interface for bulk expression data matrices.
ExpressionDataMatrix	Represents a matrix of data from an ExpressionExperiment.
SingleCellExpressionDataMatrix	In a single-cell expression data matrix, each column represents a cell.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.core.loader.expression

Class	Description
ExpressionDataDoubleMatrix	A data structure that holds a reference to the data for a given expression experiment.

Classes in ubic.gemma.core.datastructure.matrix used by ubic.gemma.persistence.service.expression.experiment

Class	Description
SingleCellExpressionDataMatrix	In a single-cell expression data matrix, each column represents a cell.