Class DifferentialExpressionAnalysisValueObject
java.lang.Object
ubic.gemma.model.common.IdentifiableValueObject<DifferentialExpressionAnalysis>
ubic.gemma.model.analysis.AnalysisValueObject<DifferentialExpressionAnalysis>
ubic.gemma.model.analysis.expression.diff.DifferentialExpressionAnalysisValueObject
- All Implemented Interfaces:
Serializable,Identifiable
public class DifferentialExpressionAnalysisValueObject
extends AnalysisValueObject<DifferentialExpressionAnalysis>
implements Serializable
Summary of a differential expression analysis
- Author:
- paul
- See Also:
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Field Summary
FieldsFields inherited from class ubic.gemma.model.common.IdentifiableValueObject
id -
Constructor Summary
ConstructorsConstructorDescriptionDoes not populate the resultSets. -
Method Summary
Modifier and TypeMethodDescriptionDeprecated.Deprecated.This was renamed for clarity.Produce a mapping ofExperimentalFactorIDs toFactorValueVOs used in this analysis.Deprecated.usegetSourceExperimentId()insteadbooleanisSubset()voidsetArrayDesignsUsed(Collection<Long> arrayDesignsUsed) voidsetExperimentAnalyzedId(Long experimentAnalyzedId) voidsetFactorValuesUsed(Map<Long, Collection<FactorValueValueObject>> factorValuesUsed) voidsetResultSets(Collection<DiffExResultSetSummaryValueObject> resultSets) voidsetSourceExperimentId(Long sourceExperimentId) voidsetSubsetFactor(ExperimentalFactorValueObject subsetFactor) voidsetSubsetFactorId(Long subsetFactorId) voidsetSubsetFactorValue(FactorValueValueObject subsetFactorValue) voidsetSubsetFactorValueId(Long subsetFactorValueId) toString()Methods inherited from class ubic.gemma.model.analysis.AnalysisValueObject
getName, getProtocol, setName, setProtocol
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Field Details
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DEFAULT_THRESHOLD
public static final double DEFAULT_THRESHOLD- See Also:
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Constructor Details
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DifferentialExpressionAnalysisValueObject
public DifferentialExpressionAnalysisValueObject() -
DifferentialExpressionAnalysisValueObject
Does not populate the resultSets.- Parameters:
analysis- the analysis to read the values from
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Method Details
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getBioAssaySetId
Deprecated.usegetExperimentAnalyzedId()instead -
getSourceExperiment
Deprecated.usegetSourceExperimentId()instead -
getFactorValuesUsed
Deprecated.This was renamed for clarity.- See Also:
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getFactorValuesUsedByExperimentalFactorId
Produce a mapping ofExperimentalFactorIDs toFactorValueVOs used in this analysis.If this is a NOT a subset analysis, then this won't be important (so it may not be populated), but for subset analyses (subsetFactor != null), only the factor values present in the subset are relevant.
This can be null in certain cases if set to NULL via
setFactorValuesUsed(Map)so that it does not appear in the JSON serialization, but you can assume it is non-null. -
isSubset
public boolean isSubset() -
toString
- Overrides:
toStringin classIdentifiableValueObject<DifferentialExpressionAnalysis>
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getResultSets
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getArrayDesignsUsed
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getExperimentAnalyzedId
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getSourceExperimentId
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getSubsetFactor
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getSubsetFactorId
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getSubsetFactorValue
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getSubsetFactorValueId
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setFactorValuesUsed
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setResultSets
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setArrayDesignsUsed
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setExperimentAnalyzedId
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setSourceExperimentId
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setSubsetFactor
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setSubsetFactorId
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setSubsetFactorValue
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setSubsetFactorValueId
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getExperimentAnalyzedId()instead