Uses of Interface
psidev.psi.mi.jami.model.ParticipantEvidence

Packages that use ParticipantEvidence

Package	Description
psidev.psi.mi.jami.binary.expansion
psidev.psi.mi.jami.binary.impl
psidev.psi.mi.jami.crosslink.extension
psidev.psi.mi.jami.crosslink.io.parser
psidev.psi.mi.jami.enricher
psidev.psi.mi.jami.enricher.impl
psidev.psi.mi.jami.enricher.impl.full
psidev.psi.mi.jami.enricher.impl.minimal
psidev.psi.mi.jami.enricher.listener
psidev.psi.mi.jami.enricher.listener.impl
psidev.psi.mi.jami.enricher.listener.impl.log
psidev.psi.mi.jami.enricher.listener.impl.writer
psidev.psi.mi.jami.factory
psidev.psi.mi.jami.html
psidev.psi.mi.jami.json.elements
psidev.psi.mi.jami.listener
psidev.psi.mi.jami.listener.impl
psidev.psi.mi.jami.model
psidev.psi.mi.jami.model.impl
psidev.psi.mi.jami.tab.extension
psidev.psi.mi.jami.tab.io.iterator
psidev.psi.mi.jami.tab.io.writer
psidev.psi.mi.jami.tab.io.writer.feeder
psidev.psi.mi.jami.tab.io.writer.feeder.extended
psidev.psi.mi.jami.tab.utils
psidev.psi.mi.jami.utils
psidev.psi.mi.jami.utils.clone
psidev.psi.mi.jami.utils.comparator.interaction
psidev.psi.mi.jami.utils.comparator.participant
psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts
psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30
psidev.psi.mi.jami.xml.model.extension
psidev.psi.mi.jami.xml.model.extension.binary
psidev.psi.mi.jami.xml.model.extension.binary.xml253
psidev.psi.mi.jami.xml.model.extension.binary.xml254
psidev.psi.mi.jami.xml.model.extension.binary.xml30
psidev.psi.mi.jami.xml.model.extension.factory.xml25
psidev.psi.mi.jami.xml.model.extension.factory.xml30
psidev.psi.mi.jami.xml.model.extension.xml253
psidev.psi.mi.jami.xml.model.extension.xml254
psidev.psi.mi.jami.xml.model.extension.xml300

Uses of ParticipantEvidence in psidev.psi.mi.jami.binary.expansion

Methods in psidev.psi.mi.jami.binary.expansion that return ParticipantEvidence

Modifier and Type	Method	Description
protected ParticipantEvidence	InteractionEvidenceSpokeExpansion.collectBestBaitForSpokeExpansion(InteractionEvidence interaction)	collectBestBaitForSpokeExpansion
protected ParticipantEvidence	InteractionEvidenceBipartiteExpansion.createParticipantForComplexEntity(Complex complexEntity)	createParticipantForComplexEntity
protected ParticipantEvidence[]	InteractionEvidenceMatrixExpansion.createParticipantsArray(InteractionEvidence interaction)	createParticipantsArray

Uses of ParticipantEvidence in psidev.psi.mi.jami.binary.impl

Constructors in psidev.psi.mi.jami.binary.impl with parameters of type ParticipantEvidence

Constructor	Description
DefaultBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for DefaultBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for DefaultNamedBinaryInteractionEvidence.

Uses of ParticipantEvidence in psidev.psi.mi.jami.crosslink.extension

Classes in psidev.psi.mi.jami.crosslink.extension that implement ParticipantEvidence

Modifier and Type	Class	Description
class	CsvExperimentalParticipantPool	Crosslink CSV extension of ParticipantEvidencePool.
class	CsvParticipantEvidence	Crosslink CSV extension of ParticipantEvidence.

Constructors in psidev.psi.mi.jami.crosslink.extension with parameters of type ParticipantEvidence

Constructor	Description
CsvBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for CsvBinaryInteractionEvidence.
CsvFeatureEvidence(ParticipantEvidence participant)	Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(ParticipantEvidence participant, String shortName, String fullName)	Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(ParticipantEvidence participant, String shortName, String fullName, CvTerm type)	Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(ParticipantEvidence participant, CvTerm type)	Constructor for CsvFeatureEvidence.

Uses of ParticipantEvidence in psidev.psi.mi.jami.crosslink.io.parser

Methods in psidev.psi.mi.jami.crosslink.io.parser that return ParticipantEvidence

Modifier and Type	Method	Description
protected ParticipantEvidence	AbstractCsvInteractionEvidenceParser.createParticipantEvidence(String protein1, int protein1Index, String pepPos, int pepPos1Index, String linkedPos, int linkedPosIndex)	createParticipantEvidence.

Uses of ParticipantEvidence in psidev.psi.mi.jami.enricher

Classes in psidev.psi.mi.jami.enricher with type parameters of type ParticipantEvidence

Modifier and Type	Interface	Description
interface	ParticipantEvidenceEnricher<T extends ParticipantEvidence>	The Participant pool enricher is an enricher which can enrich either single Participant pool or a collection.

Uses of ParticipantEvidence in psidev.psi.mi.jami.enricher.impl

Methods in psidev.psi.mi.jami.enricher.impl with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
void	CompositeParticipantEvidenceEnricher.enrich(ParticipantEvidence object)	enrich.
void	CompositeParticipantEvidenceEnricher.enrich(ParticipantEvidence object, ParticipantEvidence objectSource)	enrich.

Method parameters in psidev.psi.mi.jami.enricher.impl with type arguments of type ParticipantEvidence

Modifier and Type	Method	Description
void	CompositeParticipantEvidenceEnricher.enrich(Collection<ParticipantEvidence> objects)	enrich.

Constructor parameters in psidev.psi.mi.jami.enricher.impl with type arguments of type ParticipantEvidence

Constructor	Description
CompositeParticipantEvidenceEnricher(ParticipantEnricher<ParticipantEvidence,FeatureEvidence> entityBaseEnricher)	Constructor for CompositeParticipantEvidenceEnricher.

Uses of ParticipantEvidence in psidev.psi.mi.jami.enricher.impl.full

Classes in psidev.psi.mi.jami.enricher.impl.full with type parameters of type ParticipantEvidence

Modifier and Type	Class	Description
class	FullParticipantEvidenceEnricher<P extends ParticipantEvidence>	Created with IntelliJ IDEA.
class	FullParticipantEvidenceUpdater<P extends ParticipantEvidence>	Created with IntelliJ IDEA.

Uses of ParticipantEvidence in psidev.psi.mi.jami.enricher.impl.minimal

Classes in psidev.psi.mi.jami.enricher.impl.minimal with type parameters of type ParticipantEvidence

Modifier and Type	Class	Description
class	MinimalParticipantEvidenceEnricher<P extends ParticipantEvidence>	Created with IntelliJ IDEA.
class	MinimalParticipantEvidenceUpdater<P extends ParticipantEvidence>	Created with IntelliJ IDEA.

Uses of ParticipantEvidence in psidev.psi.mi.jami.enricher.listener

Classes in psidev.psi.mi.jami.enricher.listener with type parameters of type ParticipantEvidence

Modifier and Type	Interface	Description
interface	ParticipantEvidenceEnricherListener<P extends ParticipantEvidence>	Created with IntelliJ IDEA.

Uses of ParticipantEvidence in psidev.psi.mi.jami.enricher.listener.impl

Classes in psidev.psi.mi.jami.enricher.listener.impl with type parameters of type ParticipantEvidence

Modifier and Type	Class	Description
class	ParticipantEvidenceEnricherListenerManager<P extends ParticipantEvidence>	A manager for listeners which holds a list of listeners.

Uses of ParticipantEvidence in psidev.psi.mi.jami.enricher.listener.impl.log

Classes in psidev.psi.mi.jami.enricher.listener.impl.log with type parameters of type ParticipantEvidence

Modifier and Type	Class	Description
class	ParticipantEvidenceEnricherLogger<P extends ParticipantEvidence>	A logging listener.

Uses of ParticipantEvidence in psidev.psi.mi.jami.enricher.listener.impl.writer

Classes in psidev.psi.mi.jami.enricher.listener.impl.writer with type parameters of type ParticipantEvidence

Modifier and Type	Class	Description
class	ParticipantEvidenceEnricherStatisticsWriter<P extends ParticipantEvidence>	A statistics logger which records changes made by the enricher.

Uses of ParticipantEvidence in psidev.psi.mi.jami.factory

Methods in psidev.psi.mi.jami.factory with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
BinaryInteractionEvidence	BinaryInteractionFactory.createBinaryInteractionEvidenceFrom(InteractionEvidence interaction, ParticipantEvidence p1, ParticipantEvidence p2, CvTerm expansionMethod)	Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences
BinaryInteractionEvidence	DefaultBinaryInteractionFactory.createBinaryInteractionEvidenceFrom(InteractionEvidence interaction, ParticipantEvidence p1, ParticipantEvidence p2, CvTerm expansionMethod)	Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences

Uses of ParticipantEvidence in psidev.psi.mi.jami.html

Methods in psidev.psi.mi.jami.html with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	MIEvidenceHtmlWriter.writeConfidences(ParticipantEvidence participant)	writeConfidences
protected void	MIEvidenceHtmlWriter.writeExperimentalPreparations(ParticipantEvidence participant)	writeExperimentalPreparations
protected void	MIEvidenceHtmlWriter.writeExperimentalRole(ParticipantEvidence participant)	writeExperimentalRole
protected void	MIEvidenceHtmlWriter.writeExpressedInOrganism(ParticipantEvidence participant)	writeExpressedInOrganism
protected void	MIEvidenceHtmlWriter.writeParameters(ParticipantEvidence participant)	writeParameters
protected void	MIEvidenceHtmlWriter.writeParticipantIdentificationMethods(ParticipantEvidence participant)	writeParticipantIdentificationMethods

Uses of ParticipantEvidence in psidev.psi.mi.jami.json.elements

Methods in psidev.psi.mi.jami.json.elements with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	SimpleJsonParticipantEvidenceWriter.writeOtherProperties(ParticipantEvidence object)	writeOtherProperties.

Uses of ParticipantEvidence in psidev.psi.mi.jami.listener

Classes in psidev.psi.mi.jami.listener with type parameters of type ParticipantEvidence

Modifier and Type	Interface	Description
interface	ParticipantEvidenceChangeListener<F extends ParticipantEvidence>	Listener for changes in an experimental entity

Uses of ParticipantEvidence in psidev.psi.mi.jami.listener.impl

Classes in psidev.psi.mi.jami.listener.impl with type parameters of type ParticipantEvidence

Modifier and Type	Class	Description
class	ParticipantEvidenceChangeLogger<T extends ParticipantEvidence>	This listener will just interactor change events

Uses of ParticipantEvidence in psidev.psi.mi.jami.model

Subinterfaces of ParticipantEvidence in psidev.psi.mi.jami.model

Modifier and Type	Interface	Description
interface	ExperimentalParticipantPool	A pool of experimental participants

Uses of ParticipantEvidence in psidev.psi.mi.jami.model.impl

Classes in psidev.psi.mi.jami.model.impl that implement ParticipantEvidence

Modifier and Type	Class	Description
class	DefaultExperimentalParticipantPool	Default implementation of ExperimentalParticipantPool
class	DefaultNamedParticipantEvidence	Default implementation of named participant evidence
class	DefaultParticipantEvidence	Default implementation for ParticipantEvidence Notes: The equals and hashcode methods have NOT been overridden because the ParticipantEvidence object is a complex object.

Constructors in psidev.psi.mi.jami.model.impl with parameters of type ParticipantEvidence

Constructor	Description
DefaultFeatureEvidence(ParticipantEvidence participant)	Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(ParticipantEvidence participant, String shortName, String fullName)	Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(ParticipantEvidence participant, String shortName, String fullName, CvTerm type)	Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(ParticipantEvidence participant, CvTerm type)	Constructor for DefaultFeatureEvidence.

Uses of ParticipantEvidence in psidev.psi.mi.jami.tab.extension

Classes in psidev.psi.mi.jami.tab.extension that implement ParticipantEvidence

Modifier and Type	Class	Description
class	MitabParticipantEvidence	Mitab extension of ParticipantEvidence.

Constructors in psidev.psi.mi.jami.tab.extension with parameters of type ParticipantEvidence

Constructor	Description
MitabBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for MitabBinaryInteractionEvidence.
MitabFeatureEvidence(ParticipantEvidence participant)	Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(ParticipantEvidence participant, String shortName, String fullName)	Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(ParticipantEvidence participant, String shortName, String fullName, CvTerm type)	Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(ParticipantEvidence participant, CvTerm type)	Constructor for MitabFeatureEvidence.

Uses of ParticipantEvidence in psidev.psi.mi.jami.tab.io.iterator

Constructor parameters in psidev.psi.mi.jami.tab.io.iterator with type arguments of type ParticipantEvidence

Constructor	Description
MitabBinaryEvidenceIterator(MitabLineParser<BinaryInteractionEvidence,ParticipantEvidence,FeatureEvidence> lineParser)	Constructor for MitabBinaryEvidenceIterator.
MitabInteractionEvidenceIterator(MitabLineParser<InteractionEvidence,ParticipantEvidence,FeatureEvidence> lineParser)	Constructor for MitabInteractionEvidenceIterator.

Uses of ParticipantEvidence in psidev.psi.mi.jami.tab.io.writer

Method parameters in psidev.psi.mi.jami.tab.io.writer with type arguments of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	Mitab25BinaryWriter.setBinaryEvidenceWriter(AbstractMitab25BinaryWriter<BinaryInteractionEvidence,ParticipantEvidence> binaryEvidenceWriter)	Setter for the field binaryEvidenceWriter.
protected void	Mitab26BinaryWriter.setBinaryEvidenceWriter(AbstractMitab26BinaryWriter<BinaryInteractionEvidence,ParticipantEvidence> binaryEvidenceWriter)	Setter for the field binaryEvidenceWriter.
protected void	Mitab27BinaryWriter.setBinaryEvidenceWriter(AbstractMitab27BinaryWriter<BinaryInteractionEvidence,ParticipantEvidence> binaryEvidenceWriter)	Setter for the field binaryEvidenceWriter.
protected void	Mitab28BinaryWriter.setBinaryEvidenceWriter(AbstractMitab28BinaryWriter<BinaryInteractionEvidence,ParticipantEvidence> binaryEvidenceWriter)	Setter for the field binaryEvidenceWriter.

Uses of ParticipantEvidence in psidev.psi.mi.jami.tab.io.writer.feeder

Methods in psidev.psi.mi.jami.tab.io.writer.feeder with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
void	MitabInteractionEvidenceFeeder.writeAlias(ParticipantEvidence participant, Alias alias)	This methods write the dbsource, alias name and alias type of an alias.
void	MitabInteractionEvidenceFeeder.writeExperimentalRole(ParticipantEvidence participant)	writeExperimentalRole.
void	MitabInteractionEvidenceFeeder.writeParticipantIdentificationMethod(ParticipantEvidence participant)	writeParticipantIdentificationMethod.

Uses of ParticipantEvidence in psidev.psi.mi.jami.tab.io.writer.feeder.extended

Methods in psidev.psi.mi.jami.tab.io.writer.feeder.extended with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
void	ExtendedMitabInteractionEvidenceFeeder.writeAlias(ParticipantEvidence participant, Alias alias)	This methods write the dbsource, alias name and alias type of an alias.

Uses of ParticipantEvidence in psidev.psi.mi.jami.tab.utils

Methods in psidev.psi.mi.jami.tab.utils with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
static String	MitabUtils.findDbSourceForAlias(ParticipantEvidence participant, Alias alias)	The source of the Alias is uniprotkb if the alias type is gene name, gene name synonym, isoform synonym, locus name or orf name.

Uses of ParticipantEvidence in psidev.psi.mi.jami.utils

Methods in psidev.psi.mi.jami.utils that return ParticipantEvidence

Modifier and Type	Method	Description
static ParticipantEvidence	ParticipantUtils.collectBestParticipantEvidenceAsBaitForSpokeExpansion(Collection<? extends ParticipantEvidence> participantEvidences)	Collect the 'best bait' candidate to be used among this participantEvidences.
static ParticipantEvidence	ParticipantUtils.createUnknownBasicParticipantEvidence()	createUnknownBasicParticipantEvidence

Methods in psidev.psi.mi.jami.utils with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
static boolean	ParticipantUtils.doesParticipantHaveExperimentalRole(ParticipantEvidence participant, String roleId, String roleName)	To know if the participant evidence does have a specific experimental role
static boolean	ParticipantUtils.isParticipantEvidenceAnAlternativeBaitForSpokeExpansion(ParticipantEvidence participant)	Check if the experimental role of this participant is an alternative bait for spoke expansion in case there are no baits: fluorescence donor or suppressor gene.
static boolean	ParticipantUtils.isPutativeSelfParticipantEvidence(ParticipantEvidence p)	Method to know if a participant evidence has a putative self experimental or biological role
static boolean	ParticipantUtils.isSelfParticipantEvidence(ParticipantEvidence p)	Method to know if a participant evidence has a self experimental or biological role

Method parameters in psidev.psi.mi.jami.utils with type arguments of type ParticipantEvidence

Modifier and Type	Method	Description
static ParticipantEvidence	ParticipantUtils.collectBestParticipantEvidenceAsBaitForSpokeExpansion(Collection<? extends ParticipantEvidence> participantEvidences)	Collect the 'best bait' candidate to be used among this participantEvidences.

Uses of ParticipantEvidence in psidev.psi.mi.jami.utils.clone

Methods in psidev.psi.mi.jami.utils.clone with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
static void	ParticipantCloner.copyAndOverrideParticipantEvidenceProperties(ParticipantEvidence source, ParticipantEvidence target, boolean createNewFeature)	This method will copy properties of participant source in participant target and will override all the other properties of Target participant.

Uses of ParticipantEvidence in psidev.psi.mi.jami.utils.comparator.interaction

Methods in psidev.psi.mi.jami.utils.comparator.interaction that return types with arguments of type ParticipantEvidence

Modifier and Type	Method	Description
CollectionComparator<ParticipantEvidence>	InteractionEvidenceComparator.getParticipantCollectionComparator()	Getter for the field participantCollectionComparator.

Constructor parameters in psidev.psi.mi.jami.utils.comparator.interaction with type arguments of type ParticipantEvidence

Constructor	Description
InteractionEvidenceComparator(Comparator<ParticipantEvidence> participantComparator, Comparator<Interaction> interactionComparator, ExperimentComparator experimentComparator, ParameterComparator parameterComparator)	Creates a new InteractionEvidenceComparator.
InteractionEvidenceComparator(CollectionComparator<ParticipantEvidence> participantComparator, Comparator<Interaction> interactionComparator, ExperimentComparator experimentComparator, CollectionComparator<Parameter> parameterComparator, CollectionComparator<VariableParameterValueSet> variableParameterValuesSetComparator)	Constructor for InteractionEvidenceComparator.

Uses of ParticipantEvidence in psidev.psi.mi.jami.utils.comparator.participant

Methods in psidev.psi.mi.jami.utils.comparator.participant with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
static boolean	DefaultExactParticipantEvidenceComparator.areEquals(ParticipantEvidence experimentalParticipant1, ParticipantEvidence experimentalParticipant2, boolean ignoreInteractors)	Use DefaultExactParticipantEvidenceComparator to know if two experimental participants are equals.
static boolean	DefaultParticipantEvidenceComparator.areEquals(ParticipantEvidence experimentalParticipant1, ParticipantEvidence experimentalParticipant2, boolean ignoreInteractors)	Use DefaultParticipantEvidenceComparator to know if two experimental participants are equals.
static boolean	UnambiguousExactParticipantEvidenceComparator.areEquals(ParticipantEvidence experimentalParticipant1, ParticipantEvidence component2)	Use UnambiguousExactParticipantEvidenceComparator to know if two experimental participants are equals.
static boolean	UnambiguousParticipantEvidenceComparator.areEquals(ParticipantEvidence experimentalParticipant1, ParticipantEvidence component2)	Use UnambiguousParticipantEvidenceComparator to know if two experimental participants are equals.
int	ParticipantEvidenceComparator.compare(ParticipantEvidence experimentalParticipant1, ParticipantEvidence experimentalParticipant2)	It will first compares experimental roles using AbstractCvTermComparator.
int	UnambiguousExactParticipantEvidenceComparator.compare(ParticipantEvidence experimentalParticipant1, ParticipantEvidence experimentalParticipant2)	It will first compares experimental roles using UnambiguousCvTermComparator.
int	UnambiguousParticipantEvidenceComparator.compare(ParticipantEvidence experimentalParticipant1, ParticipantEvidence experimentalParticipant2)

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	AbstractXmlParticipantEvidenceWriter.writeConfidences(ParticipantEvidence object)	writeConfidences.
protected void	AbstractXmlParticipantEvidenceWriter.writeExperimentalInteractor(ParticipantEvidence object)	writeExperimentalInteractor.
protected void	AbstractXmlParticipantEvidenceWriter.writeExperimentalPreparations(ParticipantEvidence object)	writeExperimentalPreparations.
protected void	AbstractXmlParticipantEvidenceWriter.writeExperimentalRoles(ParticipantEvidence object)	writeExperimentalRoles.
protected void	AbstractXmlParticipantEvidenceWriter.writeHostOrganisms(ParticipantEvidence object)	writeHostOrganisms.
protected void	AbstractXmlParticipantEvidenceWriter.writeParameters(ParticipantEvidence object)	writeParameters.
protected void	AbstractXmlParticipantEvidenceWriter.writeParticipantIdentificationMethods(ParticipantEvidence object, CvTerm experimentMethod)	writeParticipantIdentificationMethods.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	AbstractXmlParticipantEvidenceWriter.writeOtherAttributes(ParticipantEvidence object, boolean writeAttributeList)	writeOtherAttributes.
protected void	AbstractXmlParticipantEvidenceWriter.writeStoichiometry(ParticipantEvidence object)	writeStoichiometry.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	AbstractXmlParticipantEvidenceWriter.writeOtherAttributes(ParticipantEvidence object, boolean writeAttributeList)	writeOtherAttributes.
protected void	AbstractXmlParticipantEvidenceWriter.writeStoichiometry(ParticipantEvidence object)	writeStoichiometry.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	XmlNamedParticipantEvidenceWriter.writeNames(ParticipantEvidence object)	writeNames.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	XmlNamedParticipantEvidenceWriter.writeNames(ParticipantEvidence object)	writeNames.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	XmlNamedParticipantEvidenceWriter.writeNames(ParticipantEvidence object)	writeNames.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	XmlNamedParticipantEvidenceWriter.writeNames(ParticipantEvidence object)	writeNames.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	XmlParticipantEvidenceWriter.writeExperimentalInteractor(ParticipantEvidence object)	writeExperimentalInteractor.
protected void	XmlParticipantEvidenceWriter.writeExperimentalRoles(ParticipantEvidence object)	writeExperimentalRoles.
protected void	XmlParticipantEvidenceWriter.writeHostOrganisms(ParticipantEvidence object)	writeHostOrganisms.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	XmlParticipantEvidenceWriter.writeExperimentalInteractor(ParticipantEvidence object)	writeExperimentalInteractor.
protected void	XmlParticipantEvidenceWriter.writeExperimentalRoles(ParticipantEvidence object)	writeExperimentalRoles.
protected void	XmlParticipantEvidenceWriter.writeHostOrganisms(ParticipantEvidence object)	writeHostOrganisms.
protected void	XmlParticipantEvidenceWriter.writeNames(ParticipantEvidence object)	writeNames.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	XmlParticipantEvidenceWriter.writeExperimentalInteractor(ParticipantEvidence object)	writeExperimentalInteractor.
protected void	XmlParticipantEvidenceWriter.writeExperimentalRoles(ParticipantEvidence object)	writeExperimentalRoles.
protected void	XmlParticipantEvidenceWriter.writeHostOrganisms(ParticipantEvidence object)	writeHostOrganisms.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30

Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
protected void	XmlParticipantEvidenceWriter.writeExperimentalInteractor(ParticipantEvidence object)	writeExperimentalInteractor.
protected void	XmlParticipantEvidenceWriter.writeExperimentalRoles(ParticipantEvidence object)	writeExperimentalRoles.
protected void	XmlParticipantEvidenceWriter.writeHostOrganisms(ParticipantEvidence object)	writeHostOrganisms.
protected void	XmlParticipantEvidenceWriter.writeNames(ParticipantEvidence object)	writeNames.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension

Subinterfaces of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension

Modifier and Type	Interface	Description
interface	ExtendedPsiXmlParticipantEvidence	Extended participant evidence for PSI-XML 2,5 standards

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension.binary

Methods in psidev.psi.mi.jami.xml.model.extension.binary that return ParticipantEvidence

Modifier and Type	Method	Description
ParticipantEvidence	XmlBinaryInteractionEvidenceWrapper.getParticipantA()	getParticipantA.
ParticipantEvidence	XmlBinaryInteractionEvidenceWrapper.getParticipantB()	getParticipantB.

Methods in psidev.psi.mi.jami.xml.model.extension.binary that return types with arguments of type ParticipantEvidence

Modifier and Type	Method	Description
Collection<ParticipantEvidence>	XmlBinaryInteractionEvidenceWrapper.getParticipants()	The collection of participants involved in this interaction.

Methods in psidev.psi.mi.jami.xml.model.extension.binary with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
boolean	XmlBinaryInteractionEvidenceWrapper.addParticipant(ParticipantEvidence part)	This method will add the participant and set the interaction of the new participant to this current interaction
boolean	XmlBinaryInteractionEvidenceWrapper.removeParticipant(ParticipantEvidence part)	This method will remove the participant and set the interaction of the new participant to null
void	XmlBinaryInteractionEvidenceWrapper.setParticipantA(ParticipantEvidence participantA)	setParticipantA.
void	XmlBinaryInteractionEvidenceWrapper.setParticipantB(ParticipantEvidence participantB)	setParticipantB.

Method parameters in psidev.psi.mi.jami.xml.model.extension.binary with type arguments of type ParticipantEvidence

Modifier and Type	Method	Description
boolean	XmlBinaryInteractionEvidenceWrapper.addAllParticipants(Collection<? extends ParticipantEvidence> participants)	This method will add all the participant and set the interaction of the new participant to this current interaction
boolean	XmlBinaryInteractionEvidenceWrapper.removeAllParticipants(Collection<? extends ParticipantEvidence> participants)	This method will remove the participant and set the interaction of the removed participant to null.

Constructors in psidev.psi.mi.jami.xml.model.extension.binary with parameters of type ParticipantEvidence

Constructor	Description
AbstractXmlBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for AbstractXmlBinaryInteractionEvidence.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension.binary.xml253

Constructors in psidev.psi.mi.jami.xml.model.extension.binary.xml253 with parameters of type ParticipantEvidence

Constructor	Description
XmlBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for XmlBinaryInteractionEvidence.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension.binary.xml254

Constructors in psidev.psi.mi.jami.xml.model.extension.binary.xml254 with parameters of type ParticipantEvidence

Constructor	Description
XmlBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for XmlBinaryInteractionEvidence.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension.binary.xml30

Constructors in psidev.psi.mi.jami.xml.model.extension.binary.xml30 with parameters of type ParticipantEvidence

Constructor	Description
XmlBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for XmlBinaryInteractionEvidence.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension.factory.xml25

Methods in psidev.psi.mi.jami.xml.model.extension.factory.xml25 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
BinaryInteractionEvidence	XmlBinaryInteractionFactory.createBinaryInteractionEvidenceFrom(InteractionEvidence interaction, ParticipantEvidence p1, ParticipantEvidence p2, CvTerm expansionMethod)	Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension.factory.xml30

Methods in psidev.psi.mi.jami.xml.model.extension.factory.xml30 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
BinaryInteractionEvidence	XmlBinaryInteractionFactory.createBinaryInteractionEvidenceFrom(InteractionEvidence interaction, ParticipantEvidence p1, ParticipantEvidence p2, CvTerm expansionMethod)	Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension.xml253

Classes in psidev.psi.mi.jami.xml.model.extension.xml253 that implement ParticipantEvidence

Modifier and Type	Class	Description
class	XmlExperimentalParticipantPool	Xml implementation of participant pool
class	XmlParticipantEvidence	Xml implementation of ParticipantEvidence

Methods in psidev.psi.mi.jami.xml.model.extension.xml253 that return types with arguments of type ParticipantEvidence

Modifier and Type	Method	Description
List<ParticipantEvidence>	AbstractXmlInteractionEvidence.JAXBParticipantWrapper.getJAXBParticipants()

Methods in psidev.psi.mi.jami.xml.model.extension.xml253 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
void	AbstractXmlInteractionEvidence.processAddedParticipant(ParticipantEvidence participant)	processAddedParticipant.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension.xml254

Classes in psidev.psi.mi.jami.xml.model.extension.xml254 that implement ParticipantEvidence

Modifier and Type	Class	Description
class	XmlExperimentalParticipantPool	Xml implementation of participant pool
class	XmlParticipantEvidence	Xml implementation of ParticipantEvidence

Methods in psidev.psi.mi.jami.xml.model.extension.xml254 that return types with arguments of type ParticipantEvidence

Modifier and Type	Method	Description
List<ParticipantEvidence>	AbstractXmlInteractionEvidence.JAXBParticipantWrapper.getJAXBParticipants()

Methods in psidev.psi.mi.jami.xml.model.extension.xml254 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
void	AbstractXmlInteractionEvidence.processAddedParticipant(ParticipantEvidence participant)	processAddedParticipant.

Uses of ParticipantEvidence in psidev.psi.mi.jami.xml.model.extension.xml300

Classes in psidev.psi.mi.jami.xml.model.extension.xml300 that implement ParticipantEvidence

Modifier and Type	Class	Description
class	XmlExperimentalParticipantPool	Xml implementation of participant pool
class	XmlParticipantEvidence	Xml implementation of ParticipantEvidence

Methods in psidev.psi.mi.jami.xml.model.extension.xml300 that return types with arguments of type ParticipantEvidence

Modifier and Type	Method	Description
List<ParticipantEvidence>	AbstractXmlInteractionEvidence.JAXBParticipantWrapper.getJAXBParticipants()

Methods in psidev.psi.mi.jami.xml.model.extension.xml300 with parameters of type ParticipantEvidence

Modifier and Type	Method	Description
void	AbstractXmlInteractionEvidence.processAddedParticipant(ParticipantEvidence participant)	processAddedParticipant.