Uses of Class
ubic.gemma.rest.util.args.DatasetArg

Packages that use DatasetArg

Package	Description
ubic.gemma.rest
ubic.gemma.rest.util.args

Uses of DatasetArg in ubic.gemma.rest

Methods in ubic.gemma.rest with parameters of type DatasetArg

Modifier and Type	Method	Description
ResponseDataObject<List<BibliographicReferenceValueObject>>	DatasetsWebService.getDatasetAllPublications(DatasetArg<?> datasetArg)
ResponseDataObject<Set<AnnotationValueObject>>	DatasetsWebService.getDatasetAnnotations(DatasetArg<?> datasetArg)	Retrieves the annotations for the given dataset.
ResponseDataObject<DatasetsWebService.BatchInformationValueObject>	DatasetsWebService.getDatasetBatchInformation(DatasetArg<?> datasetArg)
Object	DatasetsWebService.getDatasetCellLevelCharacteristics(DatasetArg<?> datasetArg, QuantitationTypeArg<?> qtArg, javax.ws.rs.core.HttpHeaders headers)
Object	DatasetsWebService.getDatasetCellTypeAssignment(DatasetArg<?> datasetArg, QuantitationTypeArg<?> qtArg, String ctaName, String protocolName, Boolean useBioAssayId, javax.ws.rs.core.HttpHeaders headers)
javax.ws.rs.core.Response	DatasetsWebService.getDatasetDesign(DatasetArg<?> datasetArg, Boolean download, Boolean force)	Retrieves the design for the given dataset.
ResponseDataObject<List<DifferentialExpressionAnalysisValueObject>>	DatasetsWebService.getDatasetDifferentialExpressionAnalyses(DatasetArg<?> datasetArg, OffsetArg offsetArg, LimitArg limitArg)	Retrieves the differential analysis results for the given dataset.
javax.ws.rs.core.Response	DatasetsWebService.getDatasetDifferentialExpressionAnalysisResultSets(DatasetArg<?> datasetArg, javax.ws.rs.core.UriInfo uriInfo)	Retrieves the result sets of all the differential expression analyses of a dataset.
javax.ws.rs.core.Response	DatasetsWebService.getDatasetExpression(DatasetArg<?> datasetArg, Boolean filterData, Boolean download, Boolean force)	Retrieves the data for the given dataset.
ResponseDataObject<Boolean>	DatasetsWebService.getDatasetHasBatchInformation(DatasetArg<?> datasetArg)	Indicate if the experiment has batch information.
ResponseDataObject<List<ArrayDesignValueObject>>	DatasetsWebService.getDatasetPlatforms(DatasetArg<?> datasetArg)	Retrieves platforms for the given dataset.
javax.ws.rs.core.Response	DatasetsWebService.getDatasetProcessedExpression(DatasetArg<?> datasetArg, Boolean filtered, Boolean download, Boolean force)	Retrieve processed expression data.
ResponseDataObject<Set<QuantitationTypeValueObject>>	DatasetsWebService.getDatasetQuantitationTypes(DatasetArg<?> datasetArg)	Retrieve all available quantitation types for a dataset.
javax.ws.rs.core.Response	DatasetsWebService.getDatasetRawExpression(DatasetArg<?> datasetArg, QuantitationTypeArg<?> quantitationTypeArg, Boolean download, Boolean force)	Retrieve raw expression data.
ResponseDataObject<List<BioAssayValueObject>>	DatasetsWebService.getDatasetSamples(DatasetArg<?> datasetArg, QuantitationTypeArg<?> quantitationTypeArg, boolean useProcessedQuantitationType)	Retrieves the samples for the given dataset.
Object	DatasetsWebService.getDatasetSingleCellDimension(DatasetArg<?> datasetArg, QuantitationTypeArg<?> qtArg, ExcludeArg<SingleCellDimensionValueObject> excludeArg, Boolean useBioAssayIds, javax.ws.rs.core.HttpHeaders headers)	Retrieve the single-cell dimension for a given quantitation type.
javax.ws.rs.core.Response	DatasetsWebService.getDatasetSingleCellExpression(DatasetArg<?> datasetArg, QuantitationTypeArg<?> quantitationTypeArg, Boolean download, Boolean force, javax.ws.rs.core.HttpHeaders headers)
ResponseDataObject<DatasetsWebService.ExpressionExperimentSubSetWithGroupsValueObject>	DatasetsWebService.getDatasetSubSetById(DatasetArg<?> datasetArg, Long subSetId)
ResponseDataObject<DatasetsWebService.ExpressionExperimentSubSetGroupValueObject>	DatasetsWebService.getDatasetSubSetGroup(DatasetArg<?> datasetArg, Long bioAssayDimensionId)
ResponseDataObject<List<DatasetsWebService.ExpressionExperimentSubSetGroupValueObject>>	DatasetsWebService.getDatasetSubSetGroups(DatasetArg<?> datasetArg)	Retrieve all the "groups" of subsets of a dataset.
ResponseDataObject<List<DatasetsWebService.ExpressionExperimentSubSetWithGroupsValueObject>>	DatasetsWebService.getDatasetSubSets(DatasetArg<?> datasetArg)
ResponseDataObject<List<BioAssayValueObject>>	DatasetsWebService.getDatasetSubSetSamples(DatasetArg<?> datasetArg, Long subSetId)
ResponseDataObject<DatasetsWebService.SimpleSVDValueObject>	DatasetsWebService.getDatasetSvd(DatasetArg<?> datasetArg)	Retrieves the design for the given dataset.
javax.ws.rs.core.Response	DatasetsWebService.refreshDataset(DatasetArg<?> datasetArg, Boolean refreshVectors, Boolean refreshReports)	Retrieve a "refreshed" dataset.

Uses of DatasetArg in ubic.gemma.rest.util.args

Subclasses of DatasetArg in ubic.gemma.rest.util.args

Modifier and Type	Class	Description
class	DatasetIdArg	Long argument type for dataset API, referencing the Dataset ID.
class	DatasetStringArg	String argument type for dataset API, referencing the Dataset short name.

Methods in ubic.gemma.rest.util.args that return DatasetArg

Modifier and Type	Method	Description
static DatasetArg<?>	DatasetArg.valueOf(String s)	Used by RS to parse value of request parameters.

Methods in ubic.gemma.rest.util.args with parameters of type DatasetArg

Modifier and Type	Method	Description
Set<AnnotationValueObject>	DatasetArgService.getAnnotations(DatasetArg<?> arg)
Long	DatasetArgService.getEntityId(DatasetArg<?> datasetArg)	Retrieve an ID for a given dataset argument.
List<ArrayDesignValueObject>	DatasetArgService.getPlatforms(DatasetArg<?> arg)	Retrieves the Platforms of the Dataset that this argument represents.
QuantitationType	DatasetArgService.getPreferredQuantitationType(DatasetArg<?> datasetArg)
List<BibliographicReferenceValueObject>	DatasetArgService.getPublications(DatasetArg<?> datasetArg)
Set<QuantitationTypeValueObject>	DatasetArgService.getQuantitationTypes(DatasetArg<?> arg)	Retrieve a dataset with quantitation type initialized.
List<BioAssayValueObject>	DatasetArgService.getSamples(DatasetArg<?> arg)
List<BioAssayValueObject>	DatasetArgService.getSamples(DatasetArg<?> datasetArg, QuantitationType qt)	Obtain a collection of BioAssays that represent the experiments samples for a particular quantitation type.
ExpressionExperimentSubSet	DatasetArgService.getSubSet(DatasetArg<?> datasetArg, Long subSetId)
List<Long>	DatasetArgService.getSubSetGroupIds(DatasetArg<?> datasetArg, ExpressionExperimentSubSet subset)
List<ExpressionExperimentSubSet>	DatasetArgService.getSubSets(DatasetArg<?> datasetArg)
List<BioAssayValueObject>	DatasetArgService.getSubSetSamples(DatasetArg<?> datasetArg, Long subSetId)
Map<ExpressionExperimentSubSet,List<Long>>	DatasetArgService.getSubSetsGroupIds(DatasetArg<?> datasetArg)