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

Class SingleCellAggregationConfig.SingleCellAggregationConfigBuilder

java.lang.Object

ubic.gemma.core.analysis.singleCell.aggregate.SingleCellAggregationConfig.SingleCellAggregationConfigBuilder

Enclosing class:

SingleCellAggregationConfig

public static class SingleCellAggregationConfig.SingleCellAggregationConfigBuilder
extends Object

Method Summary

Modifier and Type	Method	Description
SingleCellAggregationConfig.SingleCellAggregationConfigBuilder	adjustLibrarySizes(boolean adjustLibrarySizes)	Perform adjustment of library sizes to better reflect the number of reads in the source sample.
SingleCellAggregationConfig	build()
SingleCellAggregationConfig.SingleCellAggregationConfigBuilder	includeMaskedCellsInLibrarySize(boolean includeMaskedCellsInLibrarySize)	Include masked cells in the library size calculation.
SingleCellAggregationConfig.SingleCellAggregationConfigBuilder	makePreferred(boolean makePreferred)	Make the resulting QT preferred.
SingleCellAggregationConfig.SingleCellAggregationConfigBuilder	mask(CellLevelCharacteristics mask)	Categorical mask to use on data.
String	toString()

Methods inherited from class java.lang.Object

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

Method Details

mask

public SingleCellAggregationConfig.SingleCellAggregationConfigBuilder mask(@Nullable
 CellLevelCharacteristics mask)

Categorical mask to use on data.

The category of the characteristics must be Categories.MASK.

Returns:

this.

makePreferred

public SingleCellAggregationConfig.SingleCellAggregationConfigBuilder makePreferred(boolean makePreferred)

Make the resulting QT preferred.

Returns:

this.

adjustLibrarySizes

public SingleCellAggregationConfig.SingleCellAggregationConfigBuilder adjustLibrarySizes(boolean adjustLibrarySizes)

Perform adjustment of library sizes to better reflect the number of reads in the source sample.

Returns:

this.

includeMaskedCellsInLibrarySize

public SingleCellAggregationConfig.SingleCellAggregationConfigBuilder includeMaskedCellsInLibrarySize(boolean includeMaskedCellsInLibrarySize)

Include masked cells in the library size calculation.

The default is to exclude them as if they were simply filtered out.

Returns:

this.

build

public SingleCellAggregationConfig build()

toString

public String toString()

Overrides:

toString in class Object