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

Packages that use SmallMoleculeSummary

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

Uses of SmallMoleculeSummary in de.isas.mztab2.model

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

Modifier and Type	Method	Description
SmallMoleculeSummary	SmallMoleculeSummary.abundanceAssay(List<Double> abundanceAssay)	Builder method for abundanceAssay.
SmallMoleculeSummary	SmallMoleculeSummary.abundanceStudyVariable(List<Double> abundanceStudyVariable)	Builder method for abundanceStudyVariable.
SmallMoleculeSummary	SmallMoleculeSummary.abundanceVariationStudyVariable(List<Double> abundanceVariationStudyVariable)	Builder method for abundanceVariationStudyVariable.
SmallMoleculeSummary	SmallMoleculeSummary.addAbundanceAssayItem(Double abundanceAssayItem)	Add a single abundanceAssayItem to the abundanceAssay collection.
SmallMoleculeSummary	SmallMoleculeSummary.addAbundanceStudyVariableItem(Double abundanceStudyVariableItem)	Add a single abundanceStudyVariableItem to the abundanceStudyVariable collection.
SmallMoleculeSummary	SmallMoleculeSummary.addAbundanceVariationStudyVariableItem(Double abundanceVariationStudyVariableItem)	Add a single abundanceVariationStudyVariableItem to the abundanceVariationStudyVariable collection.
SmallMoleculeSummary	SmallMoleculeSummary.addAdductIonsItem(String adductIonsItem)	Add a single adductIonsItem to the adductIons collection.
SmallMoleculeSummary	SmallMoleculeSummary.addChemicalFormulaItem(String chemicalFormulaItem)	Add a single chemicalFormulaItem to the chemicalFormula collection.
SmallMoleculeSummary	SmallMoleculeSummary.addChemicalNameItem(String chemicalNameItem)	Add a single chemicalNameItem to the chemicalName collection.
SmallMoleculeSummary	SmallMoleculeSummary.addCommentItem(Comment commentItem)	Add a single commentItem to the comment collection.
SmallMoleculeSummary	SmallMoleculeSummary.addDatabaseIdentifierItem(String databaseIdentifierItem)	Add a single databaseIdentifierItem to the databaseIdentifier collection.
SmallMoleculeSummary	SmallMoleculeSummary.addInchiItem(String inchiItem)	Add a single inchiItem to the inchi collection.
SmallMoleculeSummary	SmallMoleculeSummary.addOptItem(OptColumnMapping optItem)	Add a single optItem to the opt collection.
SmallMoleculeSummary	SmallMoleculeSummary.addSmfIdRefsItem(Integer smfIdRefsItem)	Add a single smfIdRefsItem to the smfIdRefs collection.
SmallMoleculeSummary	SmallMoleculeSummary.addSmilesItem(String smilesItem)	Add a single smilesItem to the smiles collection.
SmallMoleculeSummary	SmallMoleculeSummary.addTheoreticalNeutralMassItem(Double theoreticalNeutralMassItem)	Add a single theoreticalNeutralMassItem to the theoreticalNeutralMass collection.
SmallMoleculeSummary	SmallMoleculeSummary.adductIons(List<String> adductIons)	Builder method for adductIons.
SmallMoleculeSummary	SmallMoleculeSummary.addUriItem(String uriItem)	Add a single uriItem to the uri collection.
SmallMoleculeSummary	SmallMoleculeSummary.bestIdConfidenceMeasure(Parameter bestIdConfidenceMeasure)	Builder method for bestIdConfidenceMeasure.
SmallMoleculeSummary	SmallMoleculeSummary.bestIdConfidenceValue(Double bestIdConfidenceValue)	Builder method for bestIdConfidenceValue.
SmallMoleculeSummary	SmallMoleculeSummary.chemicalFormula(List<String> chemicalFormula)	Builder method for chemicalFormula.
SmallMoleculeSummary	SmallMoleculeSummary.chemicalName(List<String> chemicalName)	Builder method for chemicalName.
SmallMoleculeSummary	SmallMoleculeSummary.comment(List<Comment> comment)	Builder method for comment.
SmallMoleculeSummary	SmallMoleculeSummary.databaseIdentifier(List<String> databaseIdentifier)	Builder method for databaseIdentifier.
SmallMoleculeSummary	SmallMoleculeSummary.inchi(List<String> inchi)	Builder method for inchi.
SmallMoleculeSummary	SmallMoleculeSummary.opt(List<OptColumnMapping> opt)	Builder method for opt.
SmallMoleculeSummary	SmallMoleculeSummary.reliability(String reliability)	Builder method for reliability.
SmallMoleculeSummary	SmallMoleculeSummary.smfIdRefs(List<Integer> smfIdRefs)	Builder method for smfIdRefs.
SmallMoleculeSummary	SmallMoleculeSummary.smiles(List<String> smiles)	Builder method for smiles.
SmallMoleculeSummary	SmallMoleculeSummary.smlId(Integer smlId)	Builder method for smlId.
SmallMoleculeSummary	SmallMoleculeSummary.theoreticalNeutralMass(List<Double> theoreticalNeutralMass)	Builder method for theoreticalNeutralMass.
SmallMoleculeSummary	SmallMoleculeSummary.uri(List<String> uri)	Builder method for uri.

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

Modifier and Type	Method	Description
@NotNull @Valid @Size(min=1) List<SmallMoleculeSummary>	MzTab.getSmallMoleculeSummary()	The small molecule section is table-based.

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

Modifier and Type	Method	Description
MzTab	MzTab.addSmallMoleculeSummaryItem(SmallMoleculeSummary smallMoleculeSummaryItem)	Add a single smallMoleculeSummaryItem to the smallMoleculeSummary collection.
Double	MzTabAccess.getAbundanceFor(Assay assay, SmallMoleculeSummary sms)	Retrieves the abundance value for the provided assay and small molecule summary object.
Double	MzTabAccess.getAbundanceFor(StudyVariable studyVariable, SmallMoleculeSummary sms)	Retrieves the abundance value for the provided study variable and small molecule summary object.
Double	MzTabAccess.getAbundanceVariationFor(StudyVariable studyVariable, SmallMoleculeSummary sms)	Retrieves the abundance variation value for the provided study variable and small molecule summary object.
List<SmallMoleculeFeature>	MzTabAccess.getFeatures(SmallMoleculeSummary sms)	Retrieve all small molecule features in order of definition for the provided small molecule summary.

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

Modifier and Type	Method	Description
void	MzTab.setSmallMoleculeSummary(List<SmallMoleculeSummary> smallMoleculeSummary)	Set smallMoleculeSummary.
MzTab	MzTab.smallMoleculeSummary(List<SmallMoleculeSummary> smallMoleculeSummary)	Builder method for smallMoleculeSummary.