Class BulkExpressionDataVector

java.lang.Object

ubic.gemma.model.common.AbstractIdentifiable

ubic.gemma.model.expression.bioAssayData.DataVector

ubic.gemma.model.expression.bioAssayData.DesignElementDataVector

ubic.gemma.model.expression.bioAssayData.BulkExpressionDataVector

All Implemented Interfaces:

Identifiable

Direct Known Subclasses:

ProcessedExpressionDataVector, RawExpressionDataVector

@MappedSuperclass
public abstract class BulkExpressionDataVector
extends DesignElementDataVector

A data vector storing bulk expression data.

Author:

poirigui

Constructor Summary

Constructors

Constructor	Description
BulkExpressionDataVector()

Method Summary

Modifier and Type	Method	Description
BioAssayDimension	getBioAssayDimension()	A dimension of BioAssay the elements of this vector apply to.
abstract int[]	getNumberOfCells()	Obtain the number of cells that were used to compute each value in this data vector, or null if now known/available.
String	getOriginalDesignElement()	Bulk data vectors are never mapped from an external source, so this is always null.
QuantitationType	getQuantitationType()	Owning QuantitationType.
void	setBioAssayDimension(BioAssayDimension bioAssayDimension)	A dimension of BioAssay the elements of this vector apply to.
abstract void	setNumberOfCells(int[] numberOfCells)
void	setQuantitationType(QuantitationType quantitationType)
String	toString()

Methods inherited from class DesignElementDataVector

getDesignElement, hashCode, setDesignElement

Methods inherited from class DataVector

getData, getDataAsBooleans, getDataAsBuffer, getDataAsChars, getDataAsDoubleBuffer, getDataAsDoubles, getDataAsFloatBuffer, getDataAsFloats, getDataAsIntBuffer, getDataAsInts, getDataAsLongBuffer, getDataAsLongs, getDataAsObjects, getDataAsStrings, getDataAsTabbedStrings, getExpressionExperiment, setData, setDataAsBooleans, setDataAsChars, setDataAsDoubles, setDataAsFloats, setDataAsInts, setDataAsLongs, setDataAsObjects, setDataAsStrings, setDataAsTabbedStrings, setExpressionExperiment

Methods inherited from class AbstractIdentifiable

equals, getId, setId

Methods inherited from class Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Details

BulkExpressionDataVector

public BulkExpressionDataVector()

Method Details

getNumberOfCells

@Nullable
public abstract int[] getNumberOfCells()

Obtain the number of cells that were used to compute each value in this data vector, or null if now known/available.

setNumberOfCells

public abstract void setNumberOfCells(@Nullable
 int[] numberOfCells)

getOriginalDesignElement

@Nullable
public String getOriginalDesignElement()

Bulk data vectors are never mapped from an external source, so this is always null.

Specified by:

getOriginalDesignElement in class DesignElementDataVector

toString

public String toString()

Overrides:

toString in class AbstractIdentifiable

getBioAssayDimension

public BioAssayDimension getBioAssayDimension()

A dimension of BioAssay the elements of this vector apply to.

getQuantitationType

public QuantitationType getQuantitationType()

Description copied from class: DataVector

Owning QuantitationType. Fetch mode varies by concrete subclass — bulk vectors keep the QT LAZY to avoid an N+1 on bulk loads, single-cell vectors fetch eagerly to match the original hbm. Declared as an abstract accessor here so each subclass can configure its own @ManyToOne fetch policy (which @MappedSuperclass + @AssociationOverride cannot do).

Specified by:

getQuantitationType in class DataVector

setBioAssayDimension

public void setBioAssayDimension(BioAssayDimension bioAssayDimension)

A dimension of BioAssay the elements of this vector apply to.

setQuantitationType

public void setQuantitationType(QuantitationType quantitationType)

Specified by:

setQuantitationType in class DataVector