Uses of Interface
ubic.gemma.core.datastructure.matrix.SingleCellExpressionDataMatrix

Packages that use SingleCellExpressionDataMatrix

Package	Description
ubic.gemma.core.analysis.singleCell.aggregate	This package contains classes for subsetting 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.visualization.cellbrowser	This package contains classes related to the Cell Browser visualization tool.
ubic.gemma.persistence.service.expression.experiment

Uses of SingleCellExpressionDataMatrix in ubic.gemma.core.analysis.singleCell.aggregate

Methods in ubic.gemma.core.analysis.singleCell.aggregate with parameters of type SingleCellExpressionDataMatrix

Modifier and Type	Method	Description
static <T> BulkExpressionDataMatrix<T>	SingleCellDataVectorAggregatorUtils.aggregate(SingleCellExpressionDataMatrix<T> scMatrix, SingleCellDataVectorAggregatorUtils.SingleCellAggregationMethod method, Class<T> scalarType)	Aggregate a single-cell data matrix.

Uses of SingleCellExpressionDataMatrix in ubic.gemma.core.datastructure.matrix

Classes in ubic.gemma.core.datastructure.matrix that implement SingleCellExpressionDataMatrix

Modifier and Type	Class	Description
class	AbstractSingleCellExpressionDataMatrix<T>
class	EmptySingleCellExpressionDataMatrix
class	SingleCellExpressionDataDoubleMatrix
class	SingleCellExpressionDataIntMatrix

Methods in ubic.gemma.core.datastructure.matrix that return SingleCellExpressionDataMatrix

Modifier and Type	Method	Description
static SingleCellExpressionDataMatrix<?>	SingleCellExpressionDataMatrix.getMatrix(List<SingleCellExpressionDataVector> vectors)

Methods in ubic.gemma.core.datastructure.matrix with parameters of type SingleCellExpressionDataMatrix

Modifier and Type	Method	Description
static List<SingleCellExpressionDataVector>	SingleCellExpressionDataMatrixUtils.toVectors(SingleCellExpressionDataMatrix<?> matrix)

Uses of SingleCellExpressionDataMatrix in ubic.gemma.core.datastructure.matrix.io

Methods in ubic.gemma.core.datastructure.matrix.io with parameters of type SingleCellExpressionDataMatrix

Modifier and Type	Method	Description
int	MexMatrixWriter.write(SingleCellExpressionDataMatrix<?> matrix, Class<? extends SingleCellExpressionDataVector> vectorType, OutputStream stream)
int	MexMatrixWriter.write(SingleCellExpressionDataMatrix<?> matrix, Class<? extends SingleCellExpressionDataVector> vectorType, Writer stream)
int	MexMatrixWriter.write(SingleCellExpressionDataMatrix<?> matrix, Map<CompositeSequence,Set<Gene>> cs2gene, OutputStream stream)	Write a MEX matrix as a TAR archive to the given output stream.
int	MexMatrixWriter.write(SingleCellExpressionDataMatrix<?> matrix, Map<CompositeSequence,Set<Gene>> cs2gene, Path outputDir)	Write a matrix to a directory.
default int	SingleCellExpressionDataMatrixWriter.write(SingleCellExpressionDataMatrix<?> matrix, OutputStream stream)
default int	SingleCellExpressionDataMatrixWriter.write(SingleCellExpressionDataMatrix<?> matrix, Writer writer)
int	TabularMatrixWriter.write(SingleCellExpressionDataMatrix<?> matrix, Class<? extends SingleCellExpressionDataVector> vectorType, Writer writer)
int	TabularMatrixWriter.write(SingleCellExpressionDataMatrix<?> matrix, Map<CompositeSequence,Set<Gene>> cs2gene, Writer writer)

Uses of SingleCellExpressionDataMatrix in ubic.gemma.core.visualization.cellbrowser

Methods in ubic.gemma.core.visualization.cellbrowser with parameters of type SingleCellExpressionDataMatrix

Modifier and Type	Method	Description
int	CellBrowserTabularMatrixWriter.write(SingleCellExpressionDataMatrix<?> matrix, Class<? extends SingleCellExpressionDataVector> vectorType, Writer writer)

Uses of SingleCellExpressionDataMatrix in ubic.gemma.persistence.service.expression.experiment

Methods in ubic.gemma.persistence.service.expression.experiment that return SingleCellExpressionDataMatrix

Modifier and Type	Method	Description
SingleCellExpressionDataMatrix<?>	SingleCellExpressionExperimentService.getSingleCellExpressionDataMatrix(ExpressionExperiment expressionExperiment, List<BioAssay> samples, QuantitationType quantitationType)	Obtain a single-cell expression data matrix for the given quantitation type.
SingleCellExpressionDataMatrix<?>	SingleCellExpressionExperimentService.getSingleCellExpressionDataMatrix(ExpressionExperiment expressionExperiment, QuantitationType quantitationType)	Obtain a single-cell expression data matrix for the given quantitation type.
SingleCellExpressionDataMatrix<?>	SingleCellExpressionExperimentServiceImpl.getSingleCellExpressionDataMatrix(ExpressionExperiment expressionExperiment, List<BioAssay> samples, QuantitationType quantitationType)
SingleCellExpressionDataMatrix<?>	SingleCellExpressionExperimentServiceImpl.getSingleCellExpressionDataMatrix(ExpressionExperiment expressionExperiment, QuantitationType quantitationType)