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

Packages that use SmallMoleculeFeature

Package	Description
de.isas.mztab2.io.serialization	This package contains classes that implement custom Jackson serializers for the mzTab-M model objects.
de.isas.mztab2.model	Base package for the jmztab-m data model, generated from the mzTab_m_swagger.yml specification.
uk.ac.ebi.pride.jmztab2.utils.parser	This package contains text file line parser implementations for the mzTab-M document sections.

Uses of SmallMoleculeFeature in de.isas.mztab2.io.serialization

Methods in de.isas.mztab2.io.serialization with parameters of type SmallMoleculeFeature

Modifier and Type	Method	Description
void	SmallMoleculeFeatureSerializer.serialize(SmallMoleculeFeature smallMoleculeFeature, com.fasterxml.jackson.core.JsonGenerator jg, com.fasterxml.jackson.databind.SerializerProvider sp)
void	SmallMoleculeFeatureSerializer.serializeWithType(SmallMoleculeFeature value, com.fasterxml.jackson.core.JsonGenerator gen, com.fasterxml.jackson.databind.SerializerProvider serializers, com.fasterxml.jackson.databind.jsontype.TypeSerializer typeSer)

Constructor parameters in de.isas.mztab2.io.serialization with type arguments of type SmallMoleculeFeature

Constructor	Description
SmallMoleculeFeatureSerializer(Class<SmallMoleculeFeature> t)	Constructor for SmallMoleculeFeatureSerializer.

Uses of SmallMoleculeFeature in de.isas.mztab2.model

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

Modifier and Type	Method	Description
SmallMoleculeFeature	SmallMoleculeFeature.abundanceAssay(List<Double> abundanceAssay)	Builder method for abundanceAssay.
SmallMoleculeFeature	SmallMoleculeFeature.addAbundanceAssayItem(Double abundanceAssayItem)	Add a single abundanceAssayItem to the abundanceAssay collection.
SmallMoleculeFeature	SmallMoleculeFeature.addCommentItem(Comment commentItem)	Add a single commentItem to the comment collection.
SmallMoleculeFeature	SmallMoleculeFeature.addOptItem(OptColumnMapping optItem)	Add a single optItem to the opt collection.
SmallMoleculeFeature	SmallMoleculeFeature.addSmeIdRefsItem(Integer smeIdRefsItem)	Add a single smeIdRefsItem to the smeIdRefs collection.
SmallMoleculeFeature	SmallMoleculeFeature.adductIon(String adductIon)	Builder method for adductIon.
SmallMoleculeFeature	SmallMoleculeFeature.charge(Integer charge)	Builder method for charge.
SmallMoleculeFeature	SmallMoleculeFeature.comment(List<Comment> comment)	Builder method for comment.
SmallMoleculeFeature	SmallMoleculeFeature.expMassToCharge(Double expMassToCharge)	Builder method for expMassToCharge.
SmallMoleculeFeature	SmallMoleculeFeature.isotopomer(Parameter isotopomer)	Builder method for isotopomer.
SmallMoleculeFeature	SmallMoleculeFeature.opt(List<OptColumnMapping> opt)	Builder method for opt.
SmallMoleculeFeature	SmallMoleculeFeature.retentionTimeInSeconds(Double retentionTimeInSeconds)	Builder method for retentionTimeInSeconds.
SmallMoleculeFeature	SmallMoleculeFeature.retentionTimeInSecondsEnd(Double retentionTimeInSecondsEnd)	Builder method for retentionTimeInSecondsEnd.
SmallMoleculeFeature	SmallMoleculeFeature.retentionTimeInSecondsStart(Double retentionTimeInSecondsStart)	Builder method for retentionTimeInSecondsStart.
SmallMoleculeFeature	SmallMoleculeFeature.smeIdRefAmbiguityCode(Integer smeIdRefAmbiguityCode)	Builder method for smeIdRefAmbiguityCode.
SmallMoleculeFeature	SmallMoleculeFeature.smeIdRefs(List<Integer> smeIdRefs)	Builder method for smeIdRefs.
SmallMoleculeFeature	SmallMoleculeFeature.smfId(Integer smfId)	Builder method for smfId.

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

Modifier and Type	Method	Description
List<SmallMoleculeFeature>	MzTabAccess.getFeatures(SmallMoleculeSummary sms)	Retrieve all small molecule features in order of definition for the provided small molecule summary.
@NotNull @Valid List<SmallMoleculeFeature>	MzTab.getSmallMoleculeFeature()	The small molecule feature section is table-based, representing individual MS regions (generally considered to be the elution profile for all isotopomers formed from a single charge state of a molecule), that have been measured/quantified.

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

Modifier and Type	Method	Description
MzTab	MzTab.addSmallMoleculeFeatureItem(SmallMoleculeFeature smallMoleculeFeatureItem)	Add a single smallMoleculeFeatureItem to the smallMoleculeFeature collection.
Double	MzTabAccess.getAbundanceFor(Assay assay, SmallMoleculeFeature smf)	Retrieves the abundance value for the provided assay and small molecule feature object.
List<SmallMoleculeEvidence>	MzTabAccess.getEvidences(SmallMoleculeFeature smf)	Retrieve all small molecule evidences in order of definition for the provided small molecule feature.

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

Modifier and Type	Method	Description
void	MzTab.setSmallMoleculeFeature(List<SmallMoleculeFeature> smallMoleculeFeature)	Set smallMoleculeFeature.
MzTab	MzTab.smallMoleculeFeature(List<SmallMoleculeFeature> smallMoleculeFeature)	Builder method for smallMoleculeFeature.

Uses of SmallMoleculeFeature in uk.ac.ebi.pride.jmztab2.utils.parser

Methods in uk.ac.ebi.pride.jmztab2.utils.parser that return SmallMoleculeFeature

Modifier and Type	Method	Description
SmallMoleculeFeature	SMFLineParser.getRecord()	Retrieve the data line to a type mzTab domain object.