Package ubic.gemma.core.analysis.service

Class OutlierFlaggingServiceImpl

java.lang.Object

ubic.gemma.core.analysis.service.ExpressionExperimentVectorManipulatingService

ubic.gemma.core.analysis.service.OutlierFlaggingServiceImpl

All Implemented Interfaces:

OutlierFlaggingService

@Component
public class OutlierFlaggingServiceImpl
extends ExpressionExperimentVectorManipulatingService
implements OutlierFlaggingService

Service for removing sample(s) from an expression experiment. This can be done in the interest of quality control, so we treat this synonymous with "outlier removal". This does not actually remove the samples. It just replaces the data in the processed data with "missing values". This means the data are only recoverable by regenerating the processed data from the raw data

Author:

pavlidis

Field Summary

Fields inherited from class ubic.gemma.core.analysis.service.ExpressionExperimentVectorManipulatingService

converter, processedExpressionDataVectorService, rawExpressionDataVectorService

Constructor Summary

Constructors

Constructor	Description
OutlierFlaggingServiceImpl()

Method Summary

Modifier and Type	Method	Description
void	markAsMissing(Collection<BioAssay> bioAssays)	This does not actually remove the sample; rather, it sets all values to "missing" in the processed data.
void	unmarkAsMissing(Collection<BioAssay> bioAssays)	Reverts the action of markAsMissing.

Methods inherited from class ubic.gemma.core.analysis.service.ExpressionExperimentVectorManipulatingService

convertFromBytes

Methods inherited from class java.lang.Object

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

Constructor Detail

OutlierFlaggingServiceImpl

public OutlierFlaggingServiceImpl()

Method Detail

markAsMissing

@Transactional(propagation=NEVER)
public void markAsMissing(Collection<BioAssay> bioAssays)

Description copied from interface: OutlierFlaggingService

This does not actually remove the sample; rather, it sets all values to "missing" in the processed data.

Specified by:

markAsMissing in interface OutlierFlaggingService

Parameters:

bioAssays - the assays to be marked as missing

unmarkAsMissing

@Transactional(propagation=NEVER)
public void unmarkAsMissing(Collection<BioAssay> bioAssays)

Description copied from interface: OutlierFlaggingService

Reverts the action of markAsMissing.

Specified by:

unmarkAsMissing in interface OutlierFlaggingService

Parameters:

bioAssays - the assays to be unmarked