Package ubic.gemma.core.analysis.singleCell.aggregate

Class SingleCellExpressionExperimentSplitAndAggregateServiceImpl

java.lang.Object

ubic.gemma.core.analysis.singleCell.aggregate.SingleCellExpressionExperimentSplitAndAggregateServiceImpl

All Implemented Interfaces:

SingleCellExpressionExperimentSplitAndAggregateService

@Service
public class SingleCellExpressionExperimentSplitAndAggregateServiceImpl
extends Object
implements SingleCellExpressionExperimentSplitAndAggregateService

Constructor Summary

Constructors

Constructor	Description
SingleCellExpressionExperimentSplitAndAggregateServiceImpl()

Method Summary

Modifier and Type	Method	Description
QuantitationType	redoAggregate(ExpressionExperiment expressionExperiment, QuantitationType scQt, CellLevelCharacteristics clc, ExperimentalFactor factor, Map<Characteristic,FactorValue> c2f, BioAssayDimension dimension, QuantitationType previousQt, AggregateConfig config)	Re-aggregate a dataset by any cell-level characteristics.
QuantitationType	redoAggregateByCellType(ExpressionExperiment expressionExperiment, BioAssayDimension dimension, QuantitationType previousQt, AggregateConfig config)	Re-aggregate a dataset by cell type.
QuantitationType	splitAndAggregate(ExpressionExperiment expressionExperiment, QuantitationType scQt, CellLevelCharacteristics clc, ExperimentalFactor cellTypeFactor, Map<Characteristic,FactorValue> c2f, SplitConfig splitConfig, AggregateConfig config)	Split and aggregate by any cell-level characteristics.
QuantitationType	splitAndAggregateByCellType(ExpressionExperiment expressionExperiment, SplitConfig splitConfig, AggregateConfig config)	Split and aggregate by cell type.

Methods inherited from class java.lang.Object

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

Constructor Details

SingleCellExpressionExperimentSplitAndAggregateServiceImpl

public SingleCellExpressionExperimentSplitAndAggregateServiceImpl()

Method Details

splitAndAggregateByCellType

@Transactional
public QuantitationType splitAndAggregateByCellType(ExpressionExperiment expressionExperiment,
 SplitConfig splitConfig,
 AggregateConfig config)

Description copied from interface: SingleCellExpressionExperimentSplitAndAggregateService

Split and aggregate by cell type.

Specified by:

splitAndAggregateByCellType in interface SingleCellExpressionExperimentSplitAndAggregateService

See Also:

• SingleCellExpressionExperimentSplitService.splitByCellType(ExpressionExperiment, SplitConfig)
• SingleCellExpressionExperimentAggregatorService.aggregateVectorsByCellType(ExpressionExperiment, List, AggregateConfig)

splitAndAggregate

@Transactional
public QuantitationType splitAndAggregate(ExpressionExperiment expressionExperiment,
 QuantitationType scQt,
 CellLevelCharacteristics clc,
 ExperimentalFactor cellTypeFactor,
 Map<Characteristic,FactorValue> c2f,
 SplitConfig splitConfig,
 AggregateConfig config)

Description copied from interface: SingleCellExpressionExperimentSplitAndAggregateService

Split and aggregate by any cell-level characteristics.

Specified by:

splitAndAggregate in interface SingleCellExpressionExperimentSplitAndAggregateService

See Also:

• SingleCellExpressionExperimentSplitService.split(ExpressionExperiment, CellLevelCharacteristics, ExperimentalFactor, Map, SplitConfig)
• SingleCellExpressionExperimentAggregatorService.aggregateVectors(ExpressionExperiment, QuantitationType, List, CellLevelCharacteristics, ExperimentalFactor, Map, AggregateConfig)

redoAggregateByCellType

@Transactional
public QuantitationType redoAggregateByCellType(ExpressionExperiment expressionExperiment,
 BioAssayDimension dimension,
 @Nullable
 QuantitationType previousQt,
 AggregateConfig config)

Description copied from interface: SingleCellExpressionExperimentSplitAndAggregateService

Re-aggregate a dataset by cell type.

Specified by:

redoAggregateByCellType in interface SingleCellExpressionExperimentSplitAndAggregateService

Parameters:

dimension - a dimension to reuse for aggregating

previousQt - a previous quantitation type the re-aggregated one is replacing, it will be removed prior to the new one being added. Ignored if null.

See Also:

• SingleCellExpressionExperimentAggregatorService.aggregateVectorsByCellType(ExpressionExperiment, List, AggregateConfig)

redoAggregate

@Transactional
public QuantitationType redoAggregate(ExpressionExperiment expressionExperiment,
 QuantitationType scQt,
 CellLevelCharacteristics clc,
 ExperimentalFactor factor,
 Map<Characteristic,FactorValue> c2f,
 BioAssayDimension dimension,
 @Nullable
 QuantitationType previousQt,
 AggregateConfig config)

Description copied from interface: SingleCellExpressionExperimentSplitAndAggregateService

Re-aggregate a dataset by any cell-level characteristics.

Specified by:

redoAggregate in interface SingleCellExpressionExperimentSplitAndAggregateService

Parameters:

dimension - a dimension to reuse for aggregating

previousQt - a previous quantitation type the re-aggregated one is replacing, it will be removed prior to the new one being added. Ignored if null.

See Also:

• SingleCellExpressionExperimentAggregatorService.aggregateVectors(ExpressionExperiment, QuantitationType, List, CellLevelCharacteristics, ExperimentalFactor, Map, AggregateConfig)