Uses of Class
ubic.gemma.model.analysis.expression.diff.Baseline

Packages that use Baseline

Package	Description
ubic.gemma.core.analysis.service
ubic.gemma.model.analysis.expression.diff
ubic.gemma.persistence.service.analysis.expression.diff
ubic.gemma.rest

Uses of Baseline in ubic.gemma.core.analysis.service

Methods in ubic.gemma.core.analysis.service with parameters of type Baseline

Modifier and Type	Method	Description
void	ExpressionAnalysisResultSetFileService.writeTsv(ExpressionAnalysisResultSet analysisResultSet, Baseline baseline, Map<Long,List<Gene>> result2Genes, Writer writer)	Write the analysis result set with result-to-gene mappings.
void	ExpressionAnalysisResultSetFileServiceImpl.writeTsv(ExpressionAnalysisResultSet analysisResultSet, Baseline baseline, Map<Long,List<Gene>> resultId2Genes, Writer appendable)

Uses of Baseline in ubic.gemma.model.analysis.expression.diff

Methods in ubic.gemma.model.analysis.expression.diff that return Baseline

Modifier and Type	Method	Description
static Baseline	Baseline.categorical(FactorValue fv)	Create a baseline for a single categorical factor.
static Baseline	Baseline.interaction(FactorValue fv1, FactorValue fv2)	Create a baseline for an interaction of factors.

Uses of Baseline in ubic.gemma.persistence.service.analysis.expression.diff

Methods in ubic.gemma.persistence.service.analysis.expression.diff that return Baseline

Modifier and Type	Method	Description
Baseline	ExpressionAnalysisResultSetDao.getBaseline(ExpressionAnalysisResultSet ears)	Retrieve the baseline for the given result set.
Baseline	ExpressionAnalysisResultSetDaoImpl.getBaseline(ExpressionAnalysisResultSet ears)
Baseline	ExpressionAnalysisResultSetService.getBaseline(ExpressionAnalysisResultSet ears)
Baseline	ExpressionAnalysisResultSetServiceImpl.getBaseline(ExpressionAnalysisResultSet ears)

Methods in ubic.gemma.persistence.service.analysis.expression.diff that return types with arguments of type Baseline

Modifier and Type	Method	Description
Map<ExpressionAnalysisResultSet,Baseline>	ExpressionAnalysisResultSetDao.getBaselinesForInteractions(Collection<ExpressionAnalysisResultSet> resultSets, boolean initializeFactorValues)	Retrieve baselines for all the given result sets representing factor interactions.
Map<ExpressionAnalysisResultSet,Baseline>	ExpressionAnalysisResultSetDaoImpl.getBaselinesForInteractions(Collection<ExpressionAnalysisResultSet> resultSets, boolean initializeFactorValues)
Map<ExpressionAnalysisResultSet,Baseline>	ExpressionAnalysisResultSetService.getBaselinesForInteractions(Set<ExpressionAnalysisResultSet> resultSets, boolean initializeFactorValues)
Map<ExpressionAnalysisResultSet,Baseline>	ExpressionAnalysisResultSetServiceImpl.getBaselinesForInteractions(Set<ExpressionAnalysisResultSet> resultSets, boolean initializeFactorValues)
Map<Long,Baseline>	ExpressionAnalysisResultSetDao.getBaselinesForInteractionsByIds(Collection<Long> ids, boolean initializeFactorValues)	Retrieve baselines using result set IDs representing factor interactions.
Map<Long,Baseline>	ExpressionAnalysisResultSetDaoImpl.getBaselinesForInteractionsByIds(Collection<Long> ids, boolean initializeFactorValues)
Map<Long,Baseline>	ExpressionAnalysisResultSetService.getBaselinesForInteractionsByIds(Collection<Long> rsIds, boolean initializeFactorValues)
Map<Long,Baseline>	ExpressionAnalysisResultSetServiceImpl.getBaselinesForInteractionsByIds(Collection<Long> rsIds, boolean initializeFactorValues)

Uses of Baseline in ubic.gemma.rest

Constructors in ubic.gemma.rest with parameters of type Baseline

Constructor	Description
DifferentialExpressionAnalysisResultByGeneValueObject(DifferentialExpressionAnalysisResult result, Long sourceExperimentId, Long experimentAnalyzedId, Baseline baseline)