Uses of Class
ubic.gemma.core.loader.expression.singleCell.SingleCellDataLoaderConfig

Packages that use SingleCellDataLoaderConfig

Package	Description
ubic.gemma.core.loader.expression.cellxgene	This package contains classes for loading expression data from CELLxGENE.
ubic.gemma.core.loader.expression.geo.singleCell	This package contains specific logic for dealing with single-cell data from GEO.
ubic.gemma.core.loader.expression.singleCell	This package contains classes for loading single-cell expression data.

Uses of SingleCellDataLoaderConfig in ubic.gemma.core.loader.expression.cellxgene

Subclasses of SingleCellDataLoaderConfig in ubic.gemma.core.loader.expression.cellxgene

Modifier and Type	Class	Description
class	CellXGeneAnnDataSingleCellDataLoaderConfig	A configuration for loading CELLxGENE data from AnnData files.

Methods in ubic.gemma.core.loader.expression.cellxgene with parameters of type SingleCellDataLoaderConfig

Modifier and Type	Method	Description
AnnDataSingleCellDataLoader	CellXGeneAnnDataSingleCellDataConfigurer.configureLoader(SingleCellDataLoaderConfig config)

Uses of SingleCellDataLoaderConfig in ubic.gemma.core.loader.expression.geo.singleCell

Methods in ubic.gemma.core.loader.expression.geo.singleCell with parameters of type SingleCellDataLoaderConfig

Modifier and Type	Method	Description
SingleCellDataLoader	AnnDataDetector.getSingleCellDataLoader(GeoSeries series, SingleCellDataLoaderConfig config)
SingleCellDataLoader	GeoSingleCellDetector.getSingleCellDataLoader(GeoSeries series, SingleCellDataLoaderConfig config)	Obtain a single-cell data loader.
SingleCellDataLoader	LoomSingleCellDetector.getSingleCellDataLoader(GeoSeries series, SingleCellDataLoaderConfig config)
SingleCellDataLoader	MexDetector.getSingleCellDataLoader(GeoSeries series, SingleCellDataLoaderConfig config)
SingleCellDataLoader	SeuratDiskDetector.getSingleCellDataLoader(GeoSeries series, SingleCellDataLoaderConfig config)
SingleCellDataLoader	SingleCellDetector.getSingleCellDataLoader(GeoSeries series, SingleCellDataLoaderConfig config)	Obtain a single cell data loader for the given GEO series based on previously downloading data.

Uses of SingleCellDataLoaderConfig in ubic.gemma.core.loader.expression.singleCell

Classes in ubic.gemma.core.loader.expression.singleCell with type parameters of type SingleCellDataLoaderConfig

Modifier and Type	Class	Description
static class	SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder<C extends SingleCellDataLoaderConfig,B extends SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder<C,B>>

Subclasses of SingleCellDataLoaderConfig in ubic.gemma.core.loader.expression.singleCell

Modifier and Type	Class	Description
class	AnnDataSingleCellDataLoaderConfig	A configuration for loading single-cell data form AnnData format.
class	MexSingleCellDataLoaderConfig

Methods in ubic.gemma.core.loader.expression.singleCell with parameters of type SingleCellDataLoaderConfig

Modifier and Type	Method	Description
AnnDataSingleCellDataLoader	AbstractAnnDataSingleCellDataLoaderConfigurer.configureLoader(SingleCellDataLoaderConfig config)	Automatically configure a loader for an AnnData file.
MexSingleCellDataLoader	AbstractMexSingleCellDataLoaderConfigurer.configureLoader(SingleCellDataLoaderConfig config)
AnnDataSingleCellDataLoader	AnnDataSingleCellDataLoaderConfigurer.configureLoader(SingleCellDataLoaderConfig config)
GenericMetadataSingleCellDataLoader	GenericMetadataSingleCellDataLoaderConfigurer.configureLoader(SingleCellDataLoaderConfig config)
MexSingleCellDataLoader	MexSingleCellDataLoaderConfigurer.configureLoader(SingleCellDataLoaderConfig config)
NullSingleCellDataLoader	NullSingleCellDataLoaderConfigurer.configureLoader(SingleCellDataLoaderConfig config)
SequencingMetadataFileSingleCellDataLoader	SequencingMetadataFileSingleCellDataLoaderConfigurer.configureLoader(SingleCellDataLoaderConfig config)
QuantitationType	SingleCellDataLoaderService.load(ExpressionExperiment ee, ArrayDesign platform, SingleCellDataLoaderConfig config)	Load single-cell data, the data type is automatically detected.
QuantitationType	SingleCellDataLoaderService.load(ExpressionExperiment ee, ArrayDesign platform, SingleCellDataType dataType, SingleCellDataLoaderConfig config)	Load a specific single-cell data type.
QuantitationType	SingleCellDataLoaderServiceImpl.load(ExpressionExperiment ee, ArrayDesign platform, SingleCellDataLoaderConfig config)
QuantitationType	SingleCellDataLoaderServiceImpl.load(ExpressionExperiment ee, ArrayDesign platform, SingleCellDataType dataType, SingleCellDataLoaderConfig config)
Collection<CellTypeAssignment>	SingleCellDataLoaderService.loadCellTypeAssignments(ExpressionExperiment ee, SingleCellDataLoaderConfig config)	Load the cell type assignments, the data type is automatically detected.
Collection<CellTypeAssignment>	SingleCellDataLoaderService.loadCellTypeAssignments(ExpressionExperiment ee, SingleCellDataType dataType, SingleCellDataLoaderConfig config)	Load the cell type assignments.
Collection<CellTypeAssignment>	SingleCellDataLoaderServiceImpl.loadCellTypeAssignments(ExpressionExperiment ee, SingleCellDataLoaderConfig config)
Collection<CellTypeAssignment>	SingleCellDataLoaderServiceImpl.loadCellTypeAssignments(ExpressionExperiment ee, SingleCellDataType dataType, SingleCellDataLoaderConfig config)
Collection<CellLevelCharacteristics>	SingleCellDataLoaderService.loadOtherCellLevelCharacteristics(ExpressionExperiment ee, SingleCellDataLoaderConfig config)	Load other cell-level characteristics (i.e.
Collection<CellLevelCharacteristics>	SingleCellDataLoaderService.loadOtherCellLevelCharacteristics(ExpressionExperiment ee, SingleCellDataType dataType, SingleCellDataLoaderConfig config)	Load other cell-level characteristics (i.e.
Collection<CellLevelCharacteristics>	SingleCellDataLoaderServiceImpl.loadOtherCellLevelCharacteristics(ExpressionExperiment ee, SingleCellDataLoaderConfig config)
Collection<CellLevelCharacteristics>	SingleCellDataLoaderServiceImpl.loadOtherCellLevelCharacteristics(ExpressionExperiment ee, SingleCellDataType dataType, SingleCellDataLoaderConfig config)
Map<BioAssay,SequencingMetadata>	SingleCellDataLoaderService.loadSequencingMetadata(ExpressionExperiment ee, SingleCellDataLoaderConfig config)	Load sequencing metadata.
Map<BioAssay,SequencingMetadata>	SingleCellDataLoaderServiceImpl.loadSequencingMetadata(ExpressionExperiment ee, SingleCellDataLoaderConfig config)