Uses of Class
de.isas.mztab2.model.Assay

Packages that use Assay

Package	Description
de.isas.mztab2.model	Base package for the jmztab-m data model, generated from the mzTab_m_swagger.yml specification.

Uses of Assay in de.isas.mztab2.model

Methods in de.isas.mztab2.model that return Assay

Modifier and Type	Method	Description
Assay	Assay.addCustomItem(Parameter customItem)	Add a single customItem to the custom collection.
Assay	Assay.addMsRunRefItem(MsRun msRunRefItem)	Add a single msRunRefItem to the msRunRef collection.
Assay	Assay.custom(List<Parameter> custom)	Builder method for custom.
Assay	Assay.externalUri(String externalUri)	Builder method for externalUri.
Assay	Assay.id(Integer id)	Builder method for id.
Assay	Assay.msRunRef(List<MsRun> msRunRef)	Builder method for msRunRef.
Assay	Assay.name(String name)	Builder method for name.
Assay	Assay.sampleRef(Sample sampleRef)	Builder method for sampleRef.

Methods in de.isas.mztab2.model that return types with arguments of type Assay

Modifier and Type	Method	Description
@NotNull @Valid List<Assay>	Metadata.getAssay()	Specification of assay.
Optional<Assay>	MzTabAccess.getAssayFor(OptColumnMapping columnMapping, Metadata metadata)	Tries to locate the assay referenced by id from the columnMapping identifier.
Optional<Assay>	MzTabAccess.getAssayFor(Integer id, Metadata metadata)	Tries to locate the assay referenced by id from the metadata section.
@Valid List<Assay>	StudyVariable.getAssayRefs()	The assays referenced by this study variable.

Methods in de.isas.mztab2.model with parameters of type Assay

Modifier and Type	Method	Description
Metadata	Metadata.addAssayItem(Assay assayItem)	Add a single assayItem to the assay collection.
StudyVariable	StudyVariable.addAssayRefsItem(Assay assayRefsItem)	Add a single assayRefsItem to the assayRefs collection.
Double	MzTabAccess.getAbundanceFor(Assay assay, SmallMoleculeFeature smf)	Retrieves the abundance value for the provided assay and small molecule feature object.
Double	MzTabAccess.getAbundanceFor(Assay assay, SmallMoleculeSummary sms)	Retrieves the abundance value for the provided assay and small molecule summary object.

Method parameters in de.isas.mztab2.model with type arguments of type Assay

Modifier and Type	Method	Description
Metadata	Metadata.assay(List<Assay> assay)	Builder method for assay.
StudyVariable	StudyVariable.assayRefs(List<Assay> assayRefs)	Builder method for assayRefs.
void	Metadata.setAssay(List<Assay> assay)	Set assay.
void	StudyVariable.setAssayRefs(List<Assay> assayRefs)	Set assayRefs.