Uses of Class
ubic.gemma.core.analysis.singleCell.aggregate.SingleCellAggregationConfig

Packages that use SingleCellAggregationConfig

Package	Description
ubic.gemma.core.analysis.singleCell.aggregate	This package contains classes for subsetting and aggregating single-cell data.

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

Methods in ubic.gemma.core.analysis.singleCell.aggregate that return SingleCellAggregationConfig

Modifier and Type	Method	Description
SingleCellAggregationConfig	SingleCellAggregationConfig.SingleCellAggregationConfigBuilder.build()

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

Modifier and Type	Method	Description
QuantitationType	SingleCellExpressionExperimentAggregateService.aggregateVectors(ExpressionExperiment ee, QuantitationType qt, List<BioAssay> cellBAs, CellLevelCharacteristics cellLevelCharacteristics, ExperimentalFactor factor, Map<Characteristic,FactorValue> cellTypeMapping, SingleCellAggregationConfig config)	Aggregate preferred single-cell data vectors by the given cell-level characteristics.
QuantitationType	SingleCellExpressionExperimentAggregateServiceImpl.aggregateVectors(ExpressionExperiment ee, QuantitationType qt, List<BioAssay> cellBAs, CellLevelCharacteristics cellLevelCharacteristics, ExperimentalFactor factor, Map<Characteristic,FactorValue> cellType2Factor, SingleCellAggregationConfig config)
QuantitationType	SingleCellExpressionExperimentAggregateService.aggregateVectorsByCellType(ExpressionExperiment ee, List<BioAssay> cellBAs, SingleCellAggregationConfig config)	Aggregate preferred single-cell data vectors by the preferred cell type assignment and the only cell type factor of the experiment.
QuantitationType	SingleCellExpressionExperimentAggregateServiceImpl.aggregateVectorsByCellType(ExpressionExperiment ee, List<BioAssay> cellBAs, SingleCellAggregationConfig config)
QuantitationType	SingleCellExpressionExperimentCreateSubSetsAndAggregateService.createSubSetsAndAggregate(ExpressionExperiment expressionExperiment, QuantitationType scQt, CellLevelCharacteristics cta, ExperimentalFactor cellTypeFactor, Map<Characteristic,FactorValue> c2f, SingleCellExperimentSubSetsCreationConfig singleCellExperimentSubSetsCreationConfig, SingleCellAggregationConfig config)	Create subsets and aggregate by any cell-level characteristics.
QuantitationType	SingleCellExpressionExperimentCreateSubSetsAndAggregateServiceImpl.createSubSetsAndAggregate(ExpressionExperiment expressionExperiment, QuantitationType scQt, CellLevelCharacteristics clc, ExperimentalFactor cellTypeFactor, Map<Characteristic,FactorValue> c2f, SingleCellExperimentSubSetsCreationConfig singleCellExperimentSubSetsCreationConfig, SingleCellAggregationConfig config)
QuantitationType	SingleCellExpressionExperimentCreateSubSetsAndAggregateService.createSubSetsAndAggregateByCellType(ExpressionExperiment expressionExperiment, SingleCellExperimentSubSetsCreationConfig singleCellExperimentSubSetsCreationConfig, SingleCellAggregationConfig config)	Create subsets and aggregate by cell type.
QuantitationType	SingleCellExpressionExperimentCreateSubSetsAndAggregateServiceImpl.createSubSetsAndAggregateByCellType(ExpressionExperiment expressionExperiment, SingleCellExperimentSubSetsCreationConfig singleCellExperimentSubSetsCreationConfig, SingleCellAggregationConfig config)
QuantitationType	SingleCellExpressionExperimentCreateSubSetsAndAggregateService.redoAggregate(ExpressionExperiment expressionExperiment, QuantitationType scQt, CellLevelCharacteristics clc, ExperimentalFactor factor, Map<Characteristic,FactorValue> c2f, BioAssayDimension dimension, QuantitationType previousQt, SingleCellAggregationConfig config)	Re-aggregate a dataset by any cell-level characteristics.
QuantitationType	SingleCellExpressionExperimentCreateSubSetsAndAggregateServiceImpl.redoAggregate(ExpressionExperiment expressionExperiment, QuantitationType scQt, CellLevelCharacteristics clc, ExperimentalFactor factor, Map<Characteristic,FactorValue> c2f, BioAssayDimension dimension, QuantitationType previousQt, SingleCellAggregationConfig config)
QuantitationType	SingleCellExpressionExperimentCreateSubSetsAndAggregateService.redoAggregateByCellType(ExpressionExperiment expressionExperiment, BioAssayDimension dimension, QuantitationType previousQt, SingleCellAggregationConfig config)	Re-aggregate a dataset by cell type.
QuantitationType	SingleCellExpressionExperimentCreateSubSetsAndAggregateServiceImpl.redoAggregateByCellType(ExpressionExperiment expressionExperiment, BioAssayDimension dimension, QuantitationType previousQt, SingleCellAggregationConfig config)