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

Packages that use ModelledInteraction

Package	Description
psidev.psi.mi.jami.binary
psidev.psi.mi.jami.binary.expansion
psidev.psi.mi.jami.binary.impl
psidev.psi.mi.jami.datasource
psidev.psi.mi.jami.enricher
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.binary
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.extension.datasource
psidev.psi.mi.jami.tab.io.iterator
psidev.psi.mi.jami.tab.io.parser
psidev.psi.mi.jami.tab.io.writer
psidev.psi.mi.jami.tab.io.writer.extended
psidev.psi.mi.jami.utils
psidev.psi.mi.jami.utils.clone
psidev.psi.mi.jami.utils.comparator.cooperativity
psidev.psi.mi.jami.utils.comparator.interaction
psidev.psi.mi.jami.xml.cache
psidev.psi.mi.jami.xml.io.iterator
psidev.psi.mi.jami.xml.io.parser
psidev.psi.mi.jami.xml.io.writer
psidev.psi.mi.jami.xml.io.writer.compact
psidev.psi.mi.jami.xml.io.writer.compact.extended
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
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30
psidev.psi.mi.jami.xml.io.writer.expanded
psidev.psi.mi.jami.xml.io.writer.expanded.extended
psidev.psi.mi.jami.xml.model.extension
psidev.psi.mi.jami.xml.model.extension.binary
psidev.psi.mi.jami.xml.model.extension.binary.xml30
psidev.psi.mi.jami.xml.model.extension.datasource
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
psidev.psi.mi.jami.xml.model.reference.xml253
psidev.psi.mi.jami.xml.model.reference.xml254
psidev.psi.mi.jami.xml.model.reference.xml300
psidev.psi.mi.jami.xml.model.xml253
psidev.psi.mi.jami.xml.model.xml254
psidev.psi.mi.jami.xml.model.xml30

Uses of ModelledInteraction in psidev.psi.mi.jami.binary

Subinterfaces of ModelledInteraction in psidev.psi.mi.jami.binary

Modifier and Type	Interface	Description
interface	ModelledBinaryInteraction	A ModelledBinary interaction is a ModelledInteraction with only two participants

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

Methods in psidev.psi.mi.jami.binary.expansion with parameters of type ModelledInteraction

Modifier and Type	Method	Description
protected ModelledParticipant	ModelledInteractionSpokeExpansion.collectBestBaitForSpokeExpansion(ModelledInteraction interaction)	collectBestBaitForSpokeExpansion
protected <P extends Participant> ModelledBinaryInteraction	ModelledInteractionBipartiteExpansion.createBinaryInteraction(ModelledInteraction interaction, P p1, P p2)	createBinaryInteraction
protected <P extends Participant> ModelledBinaryInteraction	ModelledInteractionMatrixExpansion.createBinaryInteraction(ModelledInteraction interaction, P p1, P p2)	createBinaryInteraction
protected <P extends Participant> ModelledBinaryInteraction	ModelledInteractionSpokeExpansion.createBinaryInteraction(ModelledInteraction interaction, P p1, P p2)	createBinaryInteraction
protected Collection<ModelledBinaryInteraction>	ModelledInteractionBipartiteExpansion.createBinaryInteractionWrappersFrom(ModelledInteraction interaction)	createBinaryInteractionWrappersFrom
protected Collection<ModelledBinaryInteraction>	ModelledInteractionMatrixExpansion.createBinaryInteractionWrappersFrom(ModelledInteraction interaction)	createBinaryInteractionWrappersFrom
protected Collection<ModelledBinaryInteraction>	ModelledInteractionSpokeExpansion.createBinaryInteractionWrappersFrom(ModelledInteraction interaction)	createBinaryInteractionWrappersFrom
protected Collection<ModelledBinaryInteraction>	ModelledInteractionBipartiteExpansion.createNewSelfBinaryInteractionsFrom(ModelledInteraction interaction)	createNewSelfBinaryInteractionsFrom
protected Collection<ModelledBinaryInteraction>	ModelledInteractionMatrixExpansion.createNewSelfBinaryInteractionsFrom(ModelledInteraction interaction)	createNewSelfBinaryInteractionsFrom
protected Collection<ModelledBinaryInteraction>	ModelledInteractionSpokeExpansion.createNewSelfBinaryInteractionsFrom(ModelledInteraction interaction)	createNewSelfBinaryInteractionsFrom
protected ModelledParticipant[]	ModelledInteractionMatrixExpansion.createParticipantsArray(ModelledInteraction interaction)	createParticipantsArray
protected ComplexType	ModelledInteractionBipartiteExpansion.findInteractionCategory(ModelledInteraction interaction)	findInteractionCategory
protected ComplexType	ModelledInteractionMatrixExpansion.findInteractionCategory(ModelledInteraction interaction)	findInteractionCategory
protected ComplexType	ModelledInteractionSpokeExpansion.findInteractionCategory(ModelledInteraction interaction)	findInteractionCategory

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

Classes in psidev.psi.mi.jami.binary.impl that implement ModelledInteraction

Modifier and Type	Class	Description
class	DefaultModelledBinaryInteraction	Default implementation for ModelledBinaryInteraction
class	DefaultNamedModelledBinaryInteraction	Default implementation for Named modelled binary interaction
class	ModelledBinaryInteractionWrapper	A wrapper for ModelledInteraction which contains two participants

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

Constructor	Description
ModelledBinaryInteractionWrapper(ModelledInteraction interaction)	Constructor for ModelledBinaryInteractionWrapper.
ModelledBinaryInteractionWrapper(ModelledInteraction interaction, CvTerm complexExpansion)	Constructor for ModelledBinaryInteractionWrapper.

Uses of ModelledInteraction in psidev.psi.mi.jami.datasource

Classes in psidev.psi.mi.jami.datasource with type parameters of type ModelledInteraction

Modifier and Type	Interface	Description
interface	ModelledInteractionSource<T extends ModelledInteraction>	A Data source of modelled interactions.
interface	ModelledInteractionStream<T extends ModelledInteraction>	A Data source of modelled interaction giving only a stream of interactions.

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

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

Modifier and Type	Interface	Description
interface	ModelledInteractionEnricher<I extends ModelledInteraction>	The enricher for Interactions which can enrich a single interaction or a collection.

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

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

Modifier and Type	Class	Description
class	FullModelledInteractionEnricher<I extends ModelledInteraction>	Full enricher for ModelledInteraction
class	FullModelledInteractionUpdater<I extends ModelledInteraction>	Full updater of a modelled interaction

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

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

Modifier and Type	Class	Description
class	MinimalModelledInteractionEnricher<I extends ModelledInteraction>	Minimal enricher for modelled interactions
class	MinimalModelledInteractionUpdater<I extends ModelledInteraction>	Minimal updater for modelled interaction

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

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

Modifier and Type	Interface	Description
interface	ModelledInteractionEnricherListener<I extends ModelledInteraction>	Listener for modelled interaction enrichment

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

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

Modifier and Type	Class	Description
class	ModelledInteractionEnricherListenerManager<I extends ModelledInteraction>	A manager for listeners which holds a list of listeners.

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

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

Modifier and Type	Class	Description
class	ModelledInteractionEnricherLogger<I extends ModelledInteraction>	A logging listener.

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

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

Modifier and Type	Class	Description
class	ModelledInteractionEnricherStatisticsWriter<I extends ModelledInteraction>	A statistics logger which records changes made by the enricher.

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

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

Modifier and Type	Method	Description
ModelledBinaryInteraction	BinaryInteractionFactory.createModelledBinaryInteractionFrom(ModelledInteraction interaction, ModelledParticipant p1, ModelledParticipant p2, CvTerm expansionMethod)	Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants
ModelledBinaryInteraction	DefaultBinaryInteractionFactory.createModelledBinaryInteractionFrom(ModelledInteraction interaction, ModelledParticipant p1, ModelledParticipant p2, CvTerm expansionMethod)	Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants
ModelledBinaryInteraction	BinaryInteractionFactory.createModelledBinaryInteractionWrapperFrom(ModelledInteraction interaction)	Creates a ModelledBinaryInteraction that wraps the given interaction
ModelledBinaryInteraction	DefaultBinaryInteractionFactory.createModelledBinaryInteractionWrapperFrom(ModelledInteraction interaction)	Creates a ModelledBinaryInteraction that wraps the given interaction
ModelledBinaryInteraction	BinaryInteractionFactory.createSelfModelledBinaryInteractionFrom(ModelledInteraction interaction)	Creates a ModelledInteraction representing a self interaction
ModelledBinaryInteraction	DefaultBinaryInteractionFactory.createSelfModelledBinaryInteractionFrom(ModelledInteraction interaction)	Creates a ModelledInteraction representing a self interaction

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

Methods in psidev.psi.mi.jami.html that return types with arguments of type ModelledInteraction

Modifier and Type	Method	Description
protected Set<ModelledInteraction>	AbstractMIHtmlWriter.getComplexesToWrite()	Getter for the field complexesToWrite.
protected AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>	AbstractMIHtmlWriter.getComplexWriter()	Getter for the field complexWriter.

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

Modifier and Type	Method	Description
protected void	MIModelledHtmlWriter.writeConfidences(ModelledInteraction interaction)	writeConfidences
protected void	MIModelledHtmlWriter.writeCooperativeEffects(ModelledInteraction interaction)	writeCooperativeEffects
protected void	MIModelledHtmlWriter.writeExperiment(ModelledInteraction interaction)	writeExperiment
protected void	MIModelledHtmlWriter.writeGeneralProperties(ModelledInteraction interaction)	writeGeneralProperties
protected void	AbstractMIHtmlWriter.writeModelledInteraction(ModelledInteraction c)	writeModelledInteraction
protected void	MIModelledHtmlWriter.writeModelledInteraction(ModelledInteraction c)	writeModelledInteraction
protected void	MIModelledHtmlWriter.writeParameters(ModelledInteraction interaction)	writeParameters

Constructor parameters in psidev.psi.mi.jami.html with type arguments of type ModelledInteraction

Constructor	Description
AbstractMIHtmlWriter(File file, AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature> complexWriter)	Constructor for AbstractMIHtmlWriter.
AbstractMIHtmlWriter(OutputStream output, AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature> complexWriter)	Constructor for AbstractMIHtmlWriter.
AbstractMIHtmlWriter(Writer writer, AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature> complexWriter)	Constructor for AbstractMIHtmlWriter.
AbstractMIHtmlWriter(AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature> complexWriter)	Constructor for AbstractMIHtmlWriter.

Uses of ModelledInteraction in psidev.psi.mi.jami.json.binary

Constructor parameters in psidev.psi.mi.jami.json.binary with type arguments of type ModelledInteraction

Constructor	Description
MIJsonModelledWriter(File file, OntologyTermFetcher fetcher, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(OutputStream output, OntologyTermFetcher fetcher, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(Writer writer, OntologyTermFetcher fetcher, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for MIJsonModelledWriter.

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

Classes in psidev.psi.mi.jami.json.elements with type parameters of type ModelledInteraction

Modifier and Type	Class	Description
class	SimpleJsonModelledInteractionWriter<I extends ModelledInteraction>	Json writer for modelled interactions

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

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

Modifier and Type	Interface	Description
interface	ModelledInteractionChangeListener<I extends ModelledInteraction>	Listener for changes in modelled interaction

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

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

Modifier and Type	Class	Description
class	ModelledInteractionChangeLogger<I extends ModelledInteraction>	This listener will just modelledInteraction change events

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

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

Modifier and Type	Interface	Description
interface	Complex	An interactor composed of interacting molecules that can be copurified.

Methods in psidev.psi.mi.jami.model with type parameters of type ModelledInteraction

Modifier and Type	Method	Description
<T extends ModelledInteraction> Collection<T>	CooperativeEffect.getAffectedInteractions()	Collection of model interactions affected by this model interaction.

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

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

Modifier and Type	Class	Description
class	DefaultComplex	Default implementation for complexes Notes: The equals and hashcode methods have NOT been overridden because the Complex object is a complex object.
class	DefaultModelledInteraction	Default implemntation for ModelledInteraction Notes: The equals and hashcode methods have NOT been overridden because the ModelledInteraction object is a complex object.
class	DefaultNamedModelledInteraction	Default implementation of Named modelled interaction

Methods in psidev.psi.mi.jami.model.impl that return types with arguments of type ModelledInteraction

Modifier and Type	Method	Description
Collection<ModelledInteraction>	DefaultCooperativeEffect.getAffectedInteractions()	Getter for the field affectedInteractions.

Method parameters in psidev.psi.mi.jami.model.impl with type arguments of type ModelledInteraction

Modifier and Type	Method	Description
protected void	DefaultCooperativeEffect.initialiseAffectedInteractionsWith(Collection<ModelledInteraction> affected)	initialiseAffectedInteractionsWith

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

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

Modifier and Type	Class	Description
class	MitabComplex	Mitab extension for Complex.
class	MitabModelledBinaryInteraction	A MitabBinaryInteraction is a modelled binaryInteraction with a MitabSourceLocator
class	MitabModelledInteraction	Mitab extension for ModelledInteraction.

Uses of ModelledInteraction in psidev.psi.mi.jami.tab.extension.datasource

Methods in psidev.psi.mi.jami.tab.extension.datasource that return types with arguments of type ModelledInteraction

Modifier and Type	Method	Description
protected Iterator<ModelledInteraction>	MitabModelledStreamSource.createMitabIterator()	createMitabIterator.

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

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

Constructor	Description
MitabModelledInteractionIterator(MitabLineParser<ModelledInteraction,ModelledParticipant,ModelledFeature> lineParser)	Constructor for MitabModelledInteractionIterator.

Uses of ModelledInteraction in psidev.psi.mi.jami.tab.io.parser

Classes in psidev.psi.mi.jami.tab.io.parser with type parameters of type ModelledInteraction

Modifier and Type	Class	Description
class	AbstractModelledInteractionLineParser<T extends ModelledInteraction>	Abstract class for ModelledInteraction line parsers

Methods in psidev.psi.mi.jami.tab.io.parser that return ModelledInteraction

Modifier and Type	Method	Description
protected ModelledInteraction	ModelledInteractionLineParser.createInteraction()	createInteraction.

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

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

Modifier and Type	Method	Description
protected void	Mitab25ModelledWriter.initialiseExpansionMethod(ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	initialiseExpansionMethod.

Constructor parameters in psidev.psi.mi.jami.tab.io.writer with type arguments of type ModelledInteraction

Constructor	Description
Mitab25ModelledWriter(File file, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(OutputStream output, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(Writer writer, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab25ModelledWriter.
Mitab26ModelledWriter(File file, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(OutputStream output, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(Writer writer, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab26ModelledWriter.
Mitab27ModelledWriter(File file, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(OutputStream output, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(Writer writer, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab27ModelledWriter.
Mitab28ModelledWriter(File file, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(OutputStream output, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(Writer writer, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab28ModelledWriter.

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

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

Modifier and Type	Method	Description
protected void	Mitab25ModelledWriter.initialiseExpansionMethod(ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	initialiseExpansionMethod.

Constructor parameters in psidev.psi.mi.jami.tab.io.writer.extended with type arguments of type ModelledInteraction

Constructor	Description
Mitab25ModelledWriter(File file, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(OutputStream output, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(Writer writer, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab25ModelledWriter.
Mitab26ModelledWriter(File file, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(OutputStream output, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(Writer writer, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab26ModelledWriter.
Mitab27ModelledWriter(File file, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(OutputStream output, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(Writer writer, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab27ModelledWriter.
Mitab28ModelledWriter(File file, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(OutputStream output, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(Writer writer, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for Mitab28ModelledWriter.

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

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

Modifier and Type	Method	Description
static ModelledBinaryInteraction	InteractionUtils.createAndAddNewSelfModelledBinaryInteraction(ModelledInteraction interaction)	Creates a new ModelledBinaryInteraction from the given interaction which should only contain one participant with a stoichiometry >= 2 or participant stoichiometry null and participant is not self/putative self.
static ModelledBinaryInteraction	InteractionUtils.createModelledBinaryInteractionFrom(ModelledInteraction interaction)	Create a ModelledBinaryInteractionWrapper from the given modelled interaction which should contain not more than two participants
static ComplexType	InteractionUtils.findModelledInteractionCategoryOf(ModelledInteraction interaction)	The method will find the interactionCategory (binary, self, etc.)

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

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

Modifier and Type	Method	Description
static void	InteractorCloner.copyAndOverrideBasicComplexPropertiesWithModelledInteractionProperties(ModelledInteraction source, Complex target)	This method will copy basic properties from the Interaction source in the complex target.
static void	InteractionCloner.copyAndOverrideModelledInteractionProperties(ModelledInteraction source, ModelledInteraction target, boolean createNewParticipant, boolean ignoreParticipants)	This method will copy properties of interaction source in interaction target and will override all the other properties of Target interaction.
static void	InteractionCloner.copyAndOverrideModelledParticipantsToBinary(ModelledInteraction source, ModelledBinaryInteraction target, boolean createNewParticipant, boolean self)	This method will copy participants of modelled interaction source in binary target.

Uses of ModelledInteraction in psidev.psi.mi.jami.utils.comparator.cooperativity

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

Modifier and Type	Method	Description
CollectionComparator<ModelledInteraction>	CooperativeEffectBaseComparator.getModelledInteractionCollectionComparator()	Getter for the field modelledInteractionCollectionComparator.

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

Methods in psidev.psi.mi.jami.utils.comparator.interaction with parameters of type ModelledInteraction

Modifier and Type	Method	Description
static boolean	DefaultCuratedModelledInteractionComparator.areEquals(ModelledInteraction modelledInteraction1, ModelledInteraction modelledInteraction2)	Use DefaultCuratedModelledInteractionComparator to know if two modelled interactions are equals.
static boolean	DefaultExactCuratedModelledInteractionComparator.areEquals(ModelledInteraction interaction1, ModelledInteraction interaction2)	Use DefaultExactCuratedModelledInteractionComparator to know if two modelled interactions are equals.
static boolean	DefaultExactModelledInteractionComparator.areEquals(ModelledInteraction interaction1, ModelledInteraction interaction2)	It will use a DefaultInteractionBaseComparator to compare basic interaction properties.
static boolean	DefaultModelledInteractionComparator.areEquals(ModelledInteraction interaction1, ModelledInteraction interaction2)	Use DefaultModelledInteractionComparator to know if two modelled interactions are equals.
static boolean	UnambiguousCuratedModelledInteractionComparator.areEquals(ModelledInteraction interaction1, ModelledInteraction interaction2)	Use UnambiguousCuratedModelledInteractionComparator to know if two modelled interactions are equals.
static boolean	UnambiguousExactCuratedModelledInteractionComparator.areEquals(ModelledInteraction interaction1, ModelledInteraction interaction2)	Use UnambiguousExactCuratedModelledInteractionComparator to know if two modelled interactions are equals.
static boolean	UnambiguousExactModelledInteractionComparator.areEquals(ModelledInteraction interaction1, ModelledInteraction interaction2)	Use UnambiguousExactModelledInteractionComparator to know if two modelled interactions are equals.
static boolean	UnambiguousModelledInteractionComparator.areEquals(ModelledInteraction interaction1, ModelledInteraction interaction2)	Use UnambiguousModelledInteractionComparator to know if two modelled interactions are equals.
int	CuratedModelledInteractionComparator.compare(ModelledInteraction modelledInteraction1, ModelledInteraction modelledInteraction2)	It will use a Comparator of type Interaction to compare basic interaction properties.
int	ModelledInteractionComparator.compare(ModelledInteraction modelledInteraction1, ModelledInteraction modelledInteraction2)	It will use a Comparator of type Interaction to compare basic interaction properties.
int	UnambiguousCuratedModelledInteractionComparator.compare(ModelledInteraction interaction1, ModelledInteraction interaction2)	It will use a UnambiguousCuratedInteractionBase to compare basic interaction properties.
int	UnambiguousExactCuratedModelledInteractionComparator.compare(ModelledInteraction interaction1, ModelledInteraction interaction2)	It will use a UnambiguousCuratedInteractionBase to compare basic interaction properties.
int	UnambiguousExactModelledInteractionComparator.compare(ModelledInteraction interaction1, ModelledInteraction interaction2)
int	UnambiguousModelledInteractionComparator.compare(ModelledInteraction interaction1, ModelledInteraction interaction2)

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.cache

Methods in psidev.psi.mi.jami.xml.cache that return types with arguments of type ModelledInteraction

Modifier and Type	Method	Description
Set<ModelledInteraction>	InMemoryIdentityObjectCache.clearRegisteredSubComplexes()	This method will return all registered complexes and clear them from the index
Set<ModelledInteraction>	InMemoryLightIdentityObjectCache.clearRegisteredSubComplexes()	This method will return all registered complexes and clear them from the index
Set<ModelledInteraction>	PsiXmlObjectCache.clearRegisteredSubComplexes()	This method will return all registered complexes and clear them from the index

Methods in psidev.psi.mi.jami.xml.cache with parameters of type ModelledInteraction

Modifier and Type	Method	Description
void	InMemoryIdentityObjectCache.registerSubComplex(ModelledInteraction c)	This method will register a complex that is used as an interactor
void	InMemoryLightIdentityObjectCache.registerSubComplex(ModelledInteraction c)	This method will register a complex that is used as an interactor
void	PsiXmlObjectCache.registerSubComplex(ModelledInteraction c)	This method will register a complex that is used as an interactor

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.io.iterator

Constructor parameters in psidev.psi.mi.jami.xml.io.iterator with type arguments of type ModelledInteraction

Constructor	Description
XmlModelledInteractionIterator(PsiXmlParser<ModelledInteraction> lineParser)	Constructor for XmlModelledInteractionIterator.

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.io.parser

Methods in psidev.psi.mi.jami.xml.io.parser that return types with arguments of type ModelledInteraction

Modifier and Type	Method	Description
AbstractEntrySet<AbstractBaseEntry<ModelledInteraction>>	FullXmlModelledBinaryParser.getEntrySet()	getEntrySet.
protected ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction>	FullXmlModelledBinaryParser.initialiseDefaultExpansionMethod()	initialiseDefaultExpansionMethod.
protected ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction>	XmlModelledBinaryParser.initialiseDefaultExpansionMethod()	initialiseDefaultExpansionMethod.

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.io.writer

Methods in psidev.psi.mi.jami.xml.io.writer that return types with arguments of type ModelledInteraction

Modifier and Type	Method	Description
protected PsiXmlInteractionWriter<ModelledInteraction>	AbstractXmlWriter.getComplexWriter()	Getter for the field complexWriter.

Methods in psidev.psi.mi.jami.xml.io.writer with parameters of type ModelledInteraction

Modifier and Type	Method	Description
protected void	AbstractXmlWriter.writeComplex(ModelledInteraction modelled)	writeComplex.

Method parameters in psidev.psi.mi.jami.xml.io.writer with type arguments of type ModelledInteraction

Modifier and Type	Method	Description
void	AbstractXmlWriter.setComplexWriter(PsiXmlInteractionWriter<ModelledInteraction> complexWriter)	Setter for the field complexWriter.

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.io.writer.compact

Classes in psidev.psi.mi.jami.xml.io.writer.compact with type parameters of type ModelledInteraction

Modifier and Type	Class	Description
class	AbstractCompactXmlMixWriter<I extends Interaction,M extends ModelledInteraction,E extends InteractionEvidence>	Abstract class for a compact PSI-XML writer of mixed interactions

Methods in psidev.psi.mi.jami.xml.io.writer.compact with parameters of type ModelledInteraction

Modifier and Type	Method	Description
protected void	AbstractCompactXmlWriter.registerAllInteractorsAndExperimentsFrom(ModelledInteraction interaction)	registerAllInteractorsAndExperimentsFrom.
protected void	CompactXmlModelledWriter.registerAvailabilities(ModelledInteraction interaction)	registerAvailabilities.
protected void	CompactXmlNamedModelledWriter.registerAvailabilities(ModelledInteraction interaction)	registerAvailabilities.
protected void	CompactXmlModelledWriter.registerExperiment(ModelledInteraction interaction)	registerExperiment.
protected void	CompactXmlNamedModelledWriter.registerExperiment(ModelledInteraction interaction)	registerExperiment.

Method parameters in psidev.psi.mi.jami.xml.io.writer.compact with type arguments of type ModelledInteraction

Modifier and Type	Method	Description
void	AbstractCompactXmlMixWriter.setComplexWriter(PsiXmlInteractionWriter<ModelledInteraction> complexWriter)	Setter for the field complexWriter.

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.io.writer.compact.extended

Methods in psidev.psi.mi.jami.xml.io.writer.compact.extended with parameters of type ModelledInteraction

Modifier and Type	Method	Description
protected void	CompactXmlModelledWriter.registerAvailabilities(ModelledInteraction interaction)	registerAvailabilities.
protected void	CompactXmlModelledWriter.registerExperiment(ModelledInteraction interaction)	registerExperiment.

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

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

Modifier and Type	Class	Description
class	AbstractXmlModelledInteractionWriter<I extends ModelledInteraction>	Abstract class for XML writers of modelled interaction

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

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

Modifier and Type	Class	Description
class	AbstractXmlModelledInteractionWriter<I extends ModelledInteraction>	Abstract class for XML 2.5 writers of modelled interaction

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

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

Modifier and Type	Class	Description
class	AbstractXmlModelledInteractionWriter<I extends ModelledInteraction>	Abstract class for XML 3.0 writers of modelled interaction

Uses of ModelledInteraction 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 ModelledInteraction

Modifier and Type	Method	Description
protected CvTerm	XmlModelledInteractionWriter.writeExperiments(ModelledInteraction object)	writeExperiments.

Uses of ModelledInteraction 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 ModelledInteraction

Modifier and Type	Method	Description
protected CvTerm	XmlModelledInteractionWriter.writeExperiments(ModelledInteraction object)	writeExperiments.

Uses of ModelledInteraction 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 ModelledInteraction

Modifier and Type	Method	Description
protected CvTerm	XmlModelledInteractionWriter.writeExperiments(ModelledInteraction object)	writeExperiments.

Uses of ModelledInteraction 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 ModelledInteraction

Modifier and Type	Method	Description
protected CvTerm	XmlModelledInteractionWriter.writeExperiments(ModelledInteraction object)	writeExperiments.

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended

Classes in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended with type parameters of type ModelledInteraction

Modifier and Type	Class	Description
class	AbstractXmlModelledInteractionWriter<I extends ModelledInteraction>	Abstract class for XML writers of modelled interaction

Uses of ModelledInteraction 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 ModelledInteraction

Modifier and Type	Method	Description
protected CvTerm	XmlModelledInteractionWriter.writeExperiments(ModelledInteraction object)	writeExperiments.

Uses of ModelledInteraction 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 ModelledInteraction

Modifier and Type	Method	Description
protected CvTerm	XmlModelledInteractionWriter.writeExperiments(ModelledInteraction object)	writeExperiments.

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

Classes in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25 with type parameters of type ModelledInteraction

Modifier and Type	Class	Description
class	AbstractXmlModelledInteractionWriter<I extends ModelledInteraction>	Abstract class for XML 2.5 writers of modelled interaction

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

Classes in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30 with type parameters of type ModelledInteraction

Modifier and Type	Class	Description
class	AbstractXmlModelledInteractionWriter<I extends ModelledInteraction>	Abstract class for XML 3.0 writers of modelled interaction

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.io.writer.expanded

Classes in psidev.psi.mi.jami.xml.io.writer.expanded with type parameters of type ModelledInteraction

Modifier and Type	Class	Description
class	AbstractExpandedXmlMixWriter<I extends Interaction,M extends ModelledInteraction,E extends InteractionEvidence>	Abstract class for an expanded PSI-XML writer of mixed interactions

Methods in psidev.psi.mi.jami.xml.io.writer.expanded with parameters of type ModelledInteraction

Modifier and Type	Method	Description
protected void	AbstractExpandedXmlWriter.writeComplex(ModelledInteraction modelled)	writeComplex.

Method parameters in psidev.psi.mi.jami.xml.io.writer.expanded with type arguments of type ModelledInteraction

Modifier and Type	Method	Description
void	AbstractExpandedXmlMixWriter.setComplexWriter(PsiXmlInteractionWriter<ModelledInteraction> complexWriter)	Setter for the field complexWriter.

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.io.writer.expanded.extended

Methods in psidev.psi.mi.jami.xml.io.writer.expanded.extended with parameters of type ModelledInteraction

Modifier and Type	Method	Description
protected void	ExpandedXmlBinaryEvidenceWriter.writeComplex(ModelledInteraction modelled)	writeComplex.
protected void	ExpandedXmlBinaryWriter.writeComplex(ModelledInteraction modelled)	writeComplex.
protected void	ExpandedXmlComplexWriter.writeComplex(ModelledInteraction modelled)	writeComplex.
protected void	ExpandedXmlEvidenceWriter.writeComplex(ModelledInteraction modelled)	writeComplex.
protected void	ExpandedXmlModelledBinaryWriter.writeComplex(ModelledInteraction modelled)	writeComplex.
protected void	ExpandedXmlModelledWriter.writeComplex(ModelledInteraction modelled)	writeComplex.
protected void	ExpandedXmlWriter.writeComplex(ModelledInteraction modelled)	writeComplex.
protected void	LightExpandedXmlBinaryWriter.writeComplex(ModelledInteraction modelled)	writeComplex.
protected void	LightExpandedXmlWriter.writeComplex(ModelledInteraction modelled)	writeComplex.

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

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

Modifier and Type	Interface	Description
interface	ExtendedPsiXmlModelledInteraction	Extended modelled interaction for PSI-XML 2,5 standards

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

Classes in psidev.psi.mi.jami.xml.model.extension.binary that implement ModelledInteraction

Modifier and Type	Class	Description
class	XmlModelledBinaryInteraction	Xml implementation of ModelledInteraction
class	XmlModelledBinaryInteractionWrapper	Wrapper for Xml binary interactions

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

Classes in psidev.psi.mi.jami.xml.model.extension.binary.xml30 that implement ModelledInteraction

Modifier and Type	Class	Description
class	XmlModelledBinaryInteraction	Xml implementation of ModelledInteraction
class	XmlModelledBinaryInteractionWrapper	Wrapper for Xml binary interactions

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.model.extension.datasource

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

Modifier and Type	Method	Description
protected Iterator<ModelledInteraction>	XmlModelledStreamSource.createXmlIterator()	createXmlIterator.

Uses of ModelledInteraction 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 ModelledInteraction

Modifier and Type	Method	Description
ModelledBinaryInteraction	XmlBinaryInteractionFactory.createModelledBinaryInteractionFrom(ModelledInteraction interaction, ModelledParticipant p1, ModelledParticipant p2, CvTerm expansionMethod)	Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants
ModelledBinaryInteraction	XmlBinaryInteractionFactory.createModelledBinaryInteractionWrapperFrom(ModelledInteraction interaction)	Creates a ModelledBinaryInteraction that wraps the given interaction
ModelledBinaryInteraction	XmlBinaryInteractionFactory.createSelfModelledBinaryInteractionFrom(ModelledInteraction interaction)	Creates a ModelledInteraction representing a self interaction

Uses of ModelledInteraction 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 ModelledInteraction

Modifier and Type	Method	Description
ModelledBinaryInteraction	XmlBinaryInteractionFactory.createModelledBinaryInteractionFrom(ModelledInteraction interaction, ModelledParticipant p1, ModelledParticipant p2, CvTerm expansionMethod)	Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants
ModelledBinaryInteraction	XmlBinaryInteractionFactory.createModelledBinaryInteractionWrapperFrom(ModelledInteraction interaction)	Creates a ModelledBinaryInteraction that wraps the given interaction
ModelledBinaryInteraction	XmlBinaryInteractionFactory.createSelfModelledBinaryInteractionFrom(ModelledInteraction interaction)	Creates a ModelledInteraction representing a self interaction

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

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

Modifier and Type	Class	Description
class	AbstractXmlComplex	Xml implementation for complex
class	AbstractXmlModelledInteraction	Xml implementation of ModelledInteraction
class	DefaultXmlComplex	Xml implementation for complex
class	DefaultXmlModelledInteraction	Xml implementation of ModelledInteraction
class	XmlBasicInteractionComplexWrapper	Wrapper of basic interactions If we add new modelled participants/remove participants, they will be added/removed from the list of participants of the wrapped interaction.
class	XmlComplex	Xml implementation of ModelledInteraction
class	XmlInteractionEvidenceComplexWrapper	Xml wrapper for interaction evidences used as complex
class	XmlModelledInteraction	Xml implementation of ModelledInteraction
class	XmlModelledInteractionComplexWrapper	Wrapper for complexes that were loaded as abstract interactions

Methods in psidev.psi.mi.jami.xml.model.extension.xml253 that return ModelledInteraction

Modifier and Type	Method	Description
ModelledInteraction	XmlParticipantEvidenceWrapper.getInteraction()	The interaction in which the participant is involved.
ModelledInteraction	XmlParticipantWrapper.getInteraction()	The interaction in which the participant is involved.

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

Modifier and Type	Method	Description
void	XmlParticipantEvidenceWrapper.setInteraction(ModelledInteraction interaction)	Sets the interaction.
void	XmlParticipantWrapper.setInteraction(ModelledInteraction interaction)	Sets the interaction.
void	XmlParticipantEvidenceWrapper.setInteractionAndAddParticipant(ModelledInteraction interaction)	Sets the Interaction and add the new Participant to its list of Participants.
void	XmlParticipantWrapper.setInteractionAndAddParticipant(ModelledInteraction interaction)	Sets the Interaction and add the new Participant to its list of Participants.

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

Constructor	Description
XmlParticipantPoolWrapper(ParticipantPool part, ModelledInteraction wrapper)	Constructor for XmlParticipantPoolWrapper.
XmlParticipantWrapper(ExtendedPsiXmlParticipant part, ModelledInteraction wrapper)	Constructor for XmlParticipantWrapper.

Constructor parameters in psidev.psi.mi.jami.xml.model.extension.xml253 with type arguments of type ModelledInteraction

Constructor	Description
XmlModelledParticipantPool(AbstractXmlParticipant<ModelledInteraction,ModelledFeature> delegate)	Constructor for XmlModelledParticipantPool.

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

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

Modifier and Type	Class	Description
class	AbstractXmlComplex	Xml implementation for complex
class	AbstractXmlModelledInteraction	Xml implementation of ModelledInteraction
class	DefaultXmlComplex	Xml implementation for complex
class	DefaultXmlModelledInteraction	Xml implementation of ModelledInteraction
class	XmlBasicInteractionComplexWrapper	Wrapper of basic interactions If we add new modelled participants/remove participants, they will be added/removed from the list of participants of the wrapped interaction.
class	XmlComplex	Xml implementation of ModelledInteraction
class	XmlInteractionEvidenceComplexWrapper	Xml wrapper for interaction evidences used as complex
class	XmlModelledInteraction	Xml implementation of ModelledInteraction
class	XmlModelledInteractionComplexWrapper	Wrapper for complexes that were loaded as abstract interactions

Methods in psidev.psi.mi.jami.xml.model.extension.xml254 that return ModelledInteraction

Modifier and Type	Method	Description
ModelledInteraction	XmlParticipantEvidenceWrapper.getInteraction()	The interaction in which the participant is involved.
ModelledInteraction	XmlParticipantWrapper.getInteraction()	The interaction in which the participant is involved.

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

Modifier and Type	Method	Description
void	XmlParticipantEvidenceWrapper.setInteraction(ModelledInteraction interaction)	Sets the interaction.
void	XmlParticipantWrapper.setInteraction(ModelledInteraction interaction)	Sets the interaction.
void	XmlParticipantEvidenceWrapper.setInteractionAndAddParticipant(ModelledInteraction interaction)	Sets the Interaction and add the new Participant to its list of Participants.
void	XmlParticipantWrapper.setInteractionAndAddParticipant(ModelledInteraction interaction)	Sets the Interaction and add the new Participant to its list of Participants.

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

Constructor	Description
XmlParticipantPoolWrapper(ParticipantPool part, ModelledInteraction wrapper)	Constructor for XmlParticipantPoolWrapper.
XmlParticipantWrapper(ExtendedPsiXmlParticipant part, ModelledInteraction wrapper)	Constructor for XmlParticipantWrapper.

Constructor parameters in psidev.psi.mi.jami.xml.model.extension.xml254 with type arguments of type ModelledInteraction

Constructor	Description
XmlModelledParticipantPool(AbstractXmlParticipant<ModelledInteraction,ModelledFeature> delegate)	Constructor for XmlModelledParticipantPool.

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

Subinterfaces of ModelledInteraction in psidev.psi.mi.jami.xml.model.extension.xml300

Modifier and Type	Interface	Description
interface	ExtendedPsiXmlModelledInteraction	Extended interaction for PSI-XML 2,5 standards

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

Modifier and Type	Class	Description
class	AbstractXmlComplex	Xml implementation for complex
class	AbstractXmlModelledInteraction	Xml implementation of ModelledInteraction
class	DefaultXmlComplex	Xml implementation for complex
class	DefaultXmlModelledInteraction	Xml implementation of ModelledInteraction
class	XmlBasicInteractionComplexWrapper	Wrapper of basic interactions If we add new modelled participants/remove participants, they will be added/removed from the list of participants of the wrapped interaction.
class	XmlComplex	Xml implementation of ModelledInteraction
class	XmlInteractionEvidenceComplexWrapper	Xml wrapper for interaction evidences used as complex
class	XmlModelledInteraction	Xml 3.0.0 implementation of ModelledInteraction
class	XmlModelledInteractionComplexWrapper	Wrapper for complexes that were loaded as abstract interactions

Methods in psidev.psi.mi.jami.xml.model.extension.xml300 that return ModelledInteraction

Modifier and Type	Method	Description
ModelledInteraction	XmlParticipantEvidenceWrapper.getInteraction()	The interaction in which the participant is involved.
ModelledInteraction	XmlParticipantWrapper.getInteraction()	The interaction in which the participant is involved.

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

Modifier and Type	Method	Description
Collection<ModelledInteraction>	AbstractXmlCooperativeEffect.getAffectedInteractions()	getAffectedInteractions.

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

Modifier and Type	Method	Description
void	XmlParticipantEvidenceWrapper.setInteraction(ModelledInteraction interaction)	Sets the interaction.
void	XmlParticipantWrapper.setInteraction(ModelledInteraction interaction)	Sets the interaction.
void	XmlParticipantEvidenceWrapper.setInteractionAndAddParticipant(ModelledInteraction interaction)	Sets the Interaction and add the new Participant to its list of Participants.
void	XmlParticipantWrapper.setInteractionAndAddParticipant(ModelledInteraction interaction)	Sets the Interaction and add the new Participant to its list of Participants.

Constructors in psidev.psi.mi.jami.xml.model.extension.xml300 with parameters of type ModelledInteraction

Constructor	Description
XmlParticipantPoolWrapper(ParticipantPool part, ModelledInteraction wrapper)	Constructor for XmlParticipantPoolWrapper.
XmlParticipantWrapper(ExtendedPsiXmlParticipant part, ModelledInteraction wrapper)	Constructor for XmlParticipantWrapper.

Constructor parameters in psidev.psi.mi.jami.xml.model.extension.xml300 with type arguments of type ModelledInteraction

Constructor	Description
XmlModelledParticipantPool(AbstractXmlParticipant<ModelledInteraction,ModelledFeature> delegate)	Constructor for XmlModelledParticipantPool.

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.model.reference.xml253

Classes in psidev.psi.mi.jami.xml.model.reference.xml253 that implement ModelledInteraction

Modifier and Type	Class	Description
class	AbstractComplexRef	Abstract class for references to a complex

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.model.reference.xml254

Classes in psidev.psi.mi.jami.xml.model.reference.xml254 that implement ModelledInteraction

Modifier and Type	Class	Description
class	AbstractComplexRef	Abstract class for references to a complex

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.model.reference.xml300

Classes in psidev.psi.mi.jami.xml.model.reference.xml300 that implement ModelledInteraction

Modifier and Type	Class	Description
class	AbstractComplexRef	Abstract class for references to a complex

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.model.xml253

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

Modifier and Type	Method	Description
List<ModelledInteraction>	ModelledEntry.JAXBInteractionsWrapper.getJAXBInteractions()

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.model.xml254

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

Modifier and Type	Method	Description
List<ModelledInteraction>	ModelledEntry.JAXBInteractionsWrapper.getJAXBInteractions()

Uses of ModelledInteraction in psidev.psi.mi.jami.xml.model.xml30

Methods in psidev.psi.mi.jami.xml.model.xml30 that return types with arguments of type ModelledInteraction

Modifier and Type	Method	Description
List<ModelledInteraction>	ModelledEntry.JAXBInteractionsWrapper.getJAXBInteractions()