Class AnnDataSingleCellDataLoaderConfig
java.lang.Object
ubic.gemma.core.loader.expression.DataLoaderConfig
ubic.gemma.core.loader.expression.sequencing.SequencingDataLoaderConfig
ubic.gemma.core.loader.expression.singleCell.SingleCellDataLoaderConfig
ubic.gemma.core.loader.expression.singleCell.AnnDataSingleCellDataLoaderConfig
A configuration for loading single-cell data form AnnData format.
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Nested Class Summary
Nested ClassesModifier and TypeClassDescriptionstatic classAnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C extends AnnDataSingleCellDataLoaderConfig,B extends AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C, B>> Nested classes/interfaces inherited from class ubic.gemma.core.loader.expression.singleCell.SingleCellDataLoaderConfig
SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder<C extends SingleCellDataLoaderConfig,B extends SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder<C, B>> Nested classes/interfaces inherited from class ubic.gemma.core.loader.expression.sequencing.SequencingDataLoaderConfig
SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C extends SequencingDataLoaderConfig,B extends SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C, B>> Nested classes/interfaces inherited from class ubic.gemma.core.loader.expression.DataLoaderConfig
DataLoaderConfig.DataLoaderConfigBuilder<C extends DataLoaderConfig,B extends DataLoaderConfig.DataLoaderConfigBuilder<C, B>> -
Field Summary
Fields inherited from class ubic.gemma.core.loader.expression.singleCell.SingleCellDataLoaderConfig
transformExecutor -
Constructor Summary
ConstructorsModifierConstructorDescriptionprotectedAnnDataSingleCellDataLoaderConfig(AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<?, ?> b) -
Method Summary
Methods inherited from class ubic.gemma.core.loader.expression.singleCell.SingleCellDataLoaderConfig
getCellTypeAssignmentDescription, getCellTypeAssignmentFile, getCellTypeAssignmentName, getCellTypeAssignmentProtocol, getOtherCellLevelCharacteristicsFile, getOtherCellLevelCharacteristicsNames, getPreferredCellTypeAssignmentName, getTransformExecutor, isIgnoreSamplesLackingData, isIgnoreUnmatchedCellIds, isInferSamplesFromCellIdsOverlap, isMarkSingleCellTypeAssignmentAsPreferred, isPreferSinglePrecision, isReplaceExistingCellTypeAssignment, isReplaceExistingOtherCellLevelCharacteristics, isSkipTransformations, isUseCellIdsIfSampleNameIsMissingMethods inherited from class ubic.gemma.core.loader.expression.sequencing.SequencingDataLoaderConfig
getDefaultSequencingMetadata, getSequencingMetadataFileMethods inherited from class ubic.gemma.core.loader.expression.DataLoaderConfig
getDataPath, getQuantitationTypeName, getQuantitationTypeNewName, getQuantitationTypeNewScaleType, getQuantitationTypeNewType, getRenamingFile, isMarkQuantitationTypeAsPreferred, isMarkQuantitationTypeAsRecomputedFromRawData, isReplaceExistingQuantitationType
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Constructor Details
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AnnDataSingleCellDataLoaderConfig
protected AnnDataSingleCellDataLoaderConfig(AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<?, ?> b)
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Method Details
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builder
public static AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<?,?> builder() -
getSampleFactorName
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getCellTypeFactorName
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isIgnoreCellTypeFactor
public boolean isIgnoreCellTypeFactor() -
getUnknownCellTypeIndicator
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getTranspose
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getUseRawX
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