Package ubic.gemma.core.loader.expression.singleCell

Class AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C extends AnnDataSingleCellDataLoaderConfig,B extends AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C,B>>

java.lang.Object

ubic.gemma.core.loader.expression.DataLoaderConfig.DataLoaderConfigBuilder<C,B>

ubic.gemma.core.loader.expression.sequencing.SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C,B>

ubic.gemma.core.loader.expression.singleCell.SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder<C,B>

ubic.gemma.core.loader.expression.singleCell.AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C,B>

Enclosing class:

AnnDataSingleCellDataLoaderConfig

public abstract static class AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C extends AnnDataSingleCellDataLoaderConfig,B extends AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C,B>>
extends SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder<C,B>

Constructor Summary

Constructors

Constructor	Description
AnnDataSingleCellDataLoaderConfigBuilder()

Method Summary

Modifier and Type	Method	Description
abstract C	build()
B	cellTypeFactorName(String cellTypeFactorName)
B	ignoreCellTypeFactor(boolean ignoreCellTypeFactor)
B	sampleFactorName(String sampleFactorName)
protected abstract B	self()
String	toString()
B	transpose(Boolean transpose)
B	unknownCellTypeIndicator(String unknownCellTypeIndicator)
B	useRawX(Boolean useRawX)

Methods inherited from class ubic.gemma.core.loader.expression.singleCell.SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder

cellTypeAssignmentDescription, cellTypeAssignmentFile, cellTypeAssignmentName, cellTypeAssignmentProtocol, ignoreSamplesLackingData, ignoreUnmatchedCellIds, inferSamplesFromCellIdsOverlap, markSingleCellTypeAssignmentAsPreferred, otherCellLevelCharacteristicsFile, otherCellLevelCharacteristicsNames, preferredCellTypeAssignmentName, preferSinglePrecision, replaceExistingCellTypeAssignment, replaceExistingOtherCellLevelCharacteristics, skipTransformations, transformExecutor, useCellIdsIfSampleNameIsMissing

Methods inherited from class ubic.gemma.core.loader.expression.sequencing.SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder

defaultSequencingMetadata, sequencingMetadataFile

Methods inherited from class ubic.gemma.core.loader.expression.DataLoaderConfig.DataLoaderConfigBuilder

dataPath, markQuantitationTypeAsPreferred, markQuantitationTypeAsRecomputedFromRawData, quantitationTypeName, quantitationTypeNewName, quantitationTypeNewScaleType, quantitationTypeNewType, renamingFile, replaceExistingQuantitationType

Methods inherited from class java.lang.Object

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

Constructor Details

AnnDataSingleCellDataLoaderConfigBuilder

public AnnDataSingleCellDataLoaderConfigBuilder()

Method Details

sampleFactorName

public B sampleFactorName(@Nullable
 String sampleFactorName)

Returns:

this.

cellTypeFactorName

public B cellTypeFactorName(@Nullable
 String cellTypeFactorName)

Returns:

this.

ignoreCellTypeFactor

public B ignoreCellTypeFactor(boolean ignoreCellTypeFactor)

Returns:

this.

unknownCellTypeIndicator

public B unknownCellTypeIndicator(@Nullable
 String unknownCellTypeIndicator)

Returns:

this.

transpose

public B transpose(@Nullable
 Boolean transpose)

Returns:

this.

useRawX

public B useRawX(@Nullable
 Boolean useRawX)

Returns:

this.

self

protected abstract B self()

Specified by:

self in class SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder<C extends AnnDataSingleCellDataLoaderConfig,B extends AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C,B>>

build

public abstract C build()

Specified by:

build in class SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder<C extends AnnDataSingleCellDataLoaderConfig,B extends AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C,B>>

toString

public String toString()

Overrides:

toString in class SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder<C extends AnnDataSingleCellDataLoaderConfig,B extends AnnDataSingleCellDataLoaderConfig.AnnDataSingleCellDataLoaderConfigBuilder<C,B>>