Uses of Class
ubic.gemma.model.common.description.Category
Packages that use Category
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Uses of Category in ubic.gemma.core.visualization.cellbrowser
Method parameters in ubic.gemma.core.visualization.cellbrowser with type arguments of type CategoryModifier and TypeMethodDescriptionvoidCellBrowserMetadataWriter.writeCell(BioAssay bioAssay, String cellId, int cellIndex, List<ExperimentalFactor> factors, Map<ExperimentalFactor, Map<BioMaterial, FactorValue>> factorValueMap, SortedMap<Category, Map<BioAssay, Characteristic>> bioAssayCharacteristics, SortedMap<Category, Map<BioMaterial, Characteristic>> sampleCharacteristics, List<CellLevelCharacteristics> clcs, Writer writer) -
Uses of Category in ubic.gemma.model.common.description
Fields in ubic.gemma.model.common.description declared as CategoryModifier and TypeFieldDescriptionstatic final CategoryCategories.ASSAYstatic final CategoryCategories.BIOLOGICAL_SEXstatic final CategoryCategories.BLOCKstatic final CategoryCategories.CELL_TYPEstatic final CategoryCategories.GENOTYPEstatic final CategoryCategories.MASKRepresent a mask for a set of data.static final CategoryCategories.ORGANISM_PARTstatic final CategoryCategories.TIMEPOINTstatic final CategoryCategories.TREATMENTstatic final CategoryCategories.UNCATEGORIZEDIndicate an uncategorized term.Methods in ubic.gemma.model.common.description that return CategoryModifier and TypeMethodDescriptionstatic CategoryCharacteristicUtils.getCategory(Characteristic t) Create a new characteristic that represents the category of a given characteristic.Methods in ubic.gemma.model.common.description with parameters of type CategoryModifier and TypeMethodDescriptionstatic booleanCharacteristicUtils.hasCategory(Characteristic c, Category category) Check if a given characteristics has a specific category.static CharacteristicCharacteristic.Factory.newInstance(Category category) static CharacteristicCharacteristic.Factory.newInstance(Category category, String value, String valueUri) static CharacteristicCharacteristic.Factory.newInstance(Category category, Value value) -
Uses of Category in ubic.gemma.model.expression.bioAssay
Fields in ubic.gemma.model.expression.bioAssay declared as CategoryModifier and TypeFieldDescriptionstatic final CategoryBioAssayCategories.IS_OUTLIERstatic final CategoryBioAssayCategories.NUMBER_OF_CELLSstatic final CategoryBioAssayCategories.NUMBER_OF_CELLS_BY_DESIGN_ELEMENTSstatic final CategoryBioAssayCategories.NUMBER_OF_DESIGN_ELEMENTSstatic final CategoryBioAssayCategories.PROCESSING_DATEstatic final CategoryBioAssayCategories.SEQUENCE_PAIRED_READSstatic final CategoryBioAssayCategories.SEQUENCE_READ_COUNTstatic final CategoryBioAssayCategories.SEQUENCE_READ_LENGTHMethods in ubic.gemma.model.expression.bioAssay that return types with arguments of type CategoryModifier and TypeMethodDescriptionstatic Map<Category, Map<BioAssay, Collection<Characteristic>>> BioAssayUtils.createCharacteristicMap(Collection<BioAssay> assays) Create a mapping of biomaterial to characteristics for each category. -
Uses of Category in ubic.gemma.model.expression.experiment
Fields in ubic.gemma.model.expression.experiment with type parameters of type CategoryModifier and TypeFieldDescriptionExperimentFactorUtils.BATCH_FACTOR_CATEGORIESA list of all categories considered to be batch.Methods in ubic.gemma.model.expression.experiment with parameters of type CategoryModifier and TypeMethodDescriptionstatic ExperimentalFactorExperimentalFactor.Factory.newInstance(String name, FactorType factorType, Category category) static StatementStatement.Factory.newInstance(Category category, String subject, String subjectUri) -
Uses of Category in ubic.gemma.persistence.service.expression.biomaterial
Methods in ubic.gemma.persistence.service.expression.biomaterial that return types with arguments of type CategoryModifier and TypeMethodDescriptionstatic Map<Category, Map<BioMaterial, Collection<Characteristic>>> BioMaterialUtils.createCharacteristicMap(Collection<BioMaterial> samples) Create a mapping of biomaterial to characteristics for each category. -
Uses of Category in ubic.gemma.persistence.service.expression.experiment
Methods in ubic.gemma.persistence.service.expression.experiment that return CategoryModifier and TypeMethodDescriptionExpressionExperimentDao.getCellLevelCharacteristicsCategory(CellLevelCharacteristics clc) Obtain the category of a cell-level characteristic.ExpressionExperimentDaoImpl.getCellLevelCharacteristicsCategory(CellLevelCharacteristics clc) SingleCellExpressionExperimentService.getCellLevelCharacteristicsCategory(ExpressionExperiment ee, CellLevelCharacteristics clc) SingleCellExpressionExperimentServiceImpl.getCellLevelCharacteristicsCategory(ExpressionExperiment ee, CellLevelCharacteristics clc) Methods in ubic.gemma.persistence.service.expression.experiment with parameters of type CategoryModifier and TypeMethodDescriptionExpressionExperimentDao.getCellLevelCharacteristics(ExpressionExperiment ee, Category category) Obtain all cell-level characteristics from all single-cell dimensions matching the given category.ExpressionExperimentDao.getCellLevelCharacteristics(ExpressionExperiment expressionExperiment, QuantitationType qt, Category category) ExpressionExperimentDaoImpl.getCellLevelCharacteristics(ExpressionExperiment ee, Category category) ExpressionExperimentDaoImpl.getCellLevelCharacteristics(ExpressionExperiment expressionExperiment, QuantitationType qt, Category category) SingleCellExpressionExperimentService.getCellLevelCharacteristics(ExpressionExperiment ee, Category category) Obtain CLC for given category.SingleCellExpressionExperimentServiceImpl.getCellLevelCharacteristics(ExpressionExperiment ee, Category category)