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

Packages that use CooperativeEffect

Package	Description
psidev.psi.mi.jami.binary.impl
psidev.psi.mi.jami.enricher.listener.impl
psidev.psi.mi.jami.enricher.listener.impl.writer
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.utils.clone
psidev.psi.mi.jami.utils.comparator.cooperativity
psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30
psidev.psi.mi.jami.xml.model.extension.binary
psidev.psi.mi.jami.xml.model.extension.binary.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.utils

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

Methods in psidev.psi.mi.jami.binary.impl that return types with arguments of type CooperativeEffect

Modifier and Type	Method	Description
Collection<CooperativeEffect>	DefaultModelledBinaryInteraction.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	ModelledBinaryInteractionWrapper.getCooperativeEffects()	getCooperativeEffects

Method parameters in psidev.psi.mi.jami.binary.impl with type arguments of type CooperativeEffect

Modifier and Type	Method	Description
protected void	DefaultModelledBinaryInteraction.initialiseCooperativeEffectsWith(Collection<CooperativeEffect> cooperativeEffects)	initialiseCooperativeEffectsWith

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

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

Modifier and Type	Method	Description
void	ModelledInteractionEnricherListenerManager.onAddedCooperativeEffect(I interaction, CooperativeEffect added)	onAddedCooperativeEffect
void	ModelledInteractionEnricherListenerManager.onRemovedCooperativeEffect(I interaction, CooperativeEffect removed)	onRemovedCooperativeEffect

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

Methods in psidev.psi.mi.jami.enricher.listener.impl.writer with parameters of type CooperativeEffect

Modifier and Type	Method	Description
void	ModelledInteractionEnricherStatisticsWriter.onAddedCooperativeEffect(I interaction, CooperativeEffect added)	onAddedCooperativeEffect
void	ModelledInteractionEnricherStatisticsWriter.onRemovedCooperativeEffect(I interaction, CooperativeEffect removed)	onRemovedCooperativeEffect

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

Methods in psidev.psi.mi.jami.listener with parameters of type CooperativeEffect

Modifier and Type	Method	Description
void	ModelledInteractionChangeListener.onAddedCooperativeEffect(I interaction, CooperativeEffect added)	onAddedCooperativeEffect
void	ModelledInteractionChangeListener.onRemovedCooperativeEffect(I interaction, CooperativeEffect removed)	onRemovedCooperativeEffect

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

Methods in psidev.psi.mi.jami.listener.impl with parameters of type CooperativeEffect

Modifier and Type	Method	Description
void	ComplexChangeLogger.onAddedCooperativeEffect(Complex interaction, CooperativeEffect added)	onAddedCooperativeEffect
void	ModelledInteractionChangeLogger.onAddedCooperativeEffect(I o, CooperativeEffect added)	onAddedCooperativeEffect
void	ComplexChangeLogger.onRemovedCooperativeEffect(Complex interaction, CooperativeEffect removed)	onRemovedCooperativeEffect
void	ModelledInteractionChangeLogger.onRemovedCooperativeEffect(I o, CooperativeEffect removed)	onRemovedCooperativeEffect

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

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

Modifier and Type	Interface	Description
interface	Allostery<T extends AllostericEffector>	The allostery cooperative Effect.
interface	Preassembly	The pre-assembly cooperative effect.

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

Modifier and Type	Method	Description
<C extends CooperativeEffect> Collection<C>	ModelledInteraction.getCooperativeEffects()	The collection of cooperative effects associated with this modelledInteraction.

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

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

Modifier and Type	Class	Description
class	DefaultAllostery<T extends AllostericEffector>	Default implementation for Allostery Notes: The equals and hashcode methods have NOT been overridden because the Allostery object is a complex object.
class	DefaultCooperativeEffect	Default implementation for CooperativeEffect Notes: The equals and hashcode methods have NOT been overridden because the CooperativeEffect object is a complex object.
class	DefaultPreassemby	Default implementation for Preassembly Notes: The equals and hashcode methods have NOT been overridden because the Preassembly object is a complex object.

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

Modifier and Type	Method	Description
Collection<CooperativeEffect>	DefaultComplex.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	DefaultModelledInteraction.getCooperativeEffects()	Getter for the field cooperativeEffects.

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

Modifier and Type	Method	Description
protected void	DefaultComplex.initialiseCooperativeEffectsWith(Collection<CooperativeEffect> cooperativeEffects)	initialiseCooperativeEffectsWith
protected void	DefaultModelledInteraction.initialiseCooperativeEffectsWith(Collection<CooperativeEffect> cooperativeEffects)	initialiseCooperativeEffectsWith

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

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

Modifier and Type	Method	Description
static void	CooperativeEffectCloner.copyAndOverrideBasicCooperativeEffectProperties(CooperativeEffect source, CooperativeEffect target)	This method will copy basic properties of CooperativeEffect source in CooperativeEffect target and will override all the other properties of Target CooperativeEffect.

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

Methods in psidev.psi.mi.jami.utils.comparator.cooperativity with parameters of type CooperativeEffect

Modifier and Type	Method	Description
static boolean	DefaultCooperativeEffectBaseComparator.areEquals(CooperativeEffect cooperativeEffect1, CooperativeEffect cooperativeEffect2)	Use DefaultCooperativeEffectBaseComparator to know if two CooperativeEffects are equals.
static boolean	DefaultCooperativeEffectComparator.areEquals(CooperativeEffect cooperativeEffect1, CooperativeEffect cooperativeEffect2)	Use DefaultCooperativeEffectComparator to know if two CooperativeEffects are equals.
static boolean	DefaultExactCooperativeEffectBaseComparator.areEquals(CooperativeEffect cooperativeEffect1, CooperativeEffect cooperativeEffect2)	Use DefaultExactCooperativeEffectBaseComparator to know if two CooperativeEffects are equals.
static boolean	DefaultExactCooperativeEffectComparator.areEquals(CooperativeEffect cooperativeEffect1, CooperativeEffect cooperativeEffect2)	Use DefaultExactCooperativeEffectComparator to know if two CooperativeEffects are equals.
static boolean	UnambiguousCooperativeEffectBaseComparator.areEquals(CooperativeEffect effect1, CooperativeEffect effect2)	Use UnambiguousCooperativeEffectBaseComparator to know if two CooperativeEffects are equals.
static boolean	UnambiguousCooperativeEffectComparator.areEquals(CooperativeEffect effect1, CooperativeEffect effect2)	Use UnambiguousCooperativeEffectComparator to know if two CooperativeEffects are equals.
static boolean	UnambiguousExactCooperativeEffectBaseComparator.areEquals(CooperativeEffect effect1, CooperativeEffect effect2)	Use UnambiguousExactCooperativeEffectBaseComparator to know if two CooperativeEffects are equals.
static boolean	UnambiguousExactCooperativeEffectComparator.areEquals(CooperativeEffect effect1, CooperativeEffect effect2)	Use UnambiguousExactCooperativeEffectComparator to know if two CooperativeEffects are equals.
int	CooperativeEffectBaseComparator.compare(CooperativeEffect cooperativeEffect1, CooperativeEffect cooperativeEffect2)	It will first compare the outcome using AbstractCvTermComparator.
int	CooperativeEffectComparator.compare(CooperativeEffect cooperativeEffect1, CooperativeEffect cooperativeEffect2)	Allostery effects will always come before basic cooperative effects (preassembly) - It will use AllosteryComparator to compare allostery - It will use CooperativeEffectBaseComparator to compare basic cooperative effects
int	UnambiguousCooperativeEffectBaseComparator.compare(CooperativeEffect effect1, CooperativeEffect effect2)	It will first compare the outcome using UnambiguousCvTermComparator.
int	UnambiguousCooperativeEffectComparator.compare(CooperativeEffect effect1, CooperativeEffect effect2)	Allostery effects will always come before basic cooperative effects (preassembly) - It will use DefaultExactAllosteryComparator to compare allostery - It will use DefaultExactCooperativeEffectBaseComparator to compare basic cooperative effects
int	UnambiguousExactCooperativeEffectBaseComparator.compare(CooperativeEffect effect1, CooperativeEffect effect2)	It will first compare the outcome using UnambiguousCvTermComparator.
int	UnambiguousExactCooperativeEffectComparator.compare(CooperativeEffect effect1, CooperativeEffect effect2)	Allostery effects will always come before basic cooperative effects (preassembly) - It will use DefaultExactAllosteryComparator to compare allostery - It will use DefaultExactCooperativeEffectBaseComparator to compare basic cooperative effects
static int	UnambiguousCooperativeEffectBaseComparator.hashCode(CooperativeEffect effect)	hashCode
static int	UnambiguousExactCooperativeEffectBaseComparator.hashCode(CooperativeEffect effect)	hashCode

Uses of CooperativeEffect 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 CooperativeEffect

Modifier and Type	Class	Description
class	AbstractXmlCooperativeEffectWriter<C extends CooperativeEffect>	Abstract Xml 3.0 writer for cooperative effect

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

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

Modifier and Type	Method	Description
Collection<CooperativeEffect>	XmlModelledBinaryInteraction.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlModelledBinaryInteractionWrapper.getCooperativeEffects()	The collection of cooperative effects associated with this modelledInteraction.

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

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

Modifier and Type	Method	Description
Collection<CooperativeEffect>	XmlModelledBinaryInteraction.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlModelledBinaryInteractionWrapper.getCooperativeEffects()	The collection of cooperative effects associated with this modelledInteraction.

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

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

Modifier and Type	Class	Description
class	XmlAllostery<T extends AllostericEffector>	XML implementation of Allostery
class	XmlPreAssembly	Xml implementation of preassembly

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

Modifier and Type	Method	Description
Collection<CooperativeEffect>	AbstractXmlModelledInteraction.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlBasicInteractionComplexWrapper.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlInteractionEvidenceComplexWrapper.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlModelledInteractionComplexWrapper.getCooperativeEffects()	getCooperativeEffects.

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

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

Modifier and Type	Class	Description
class	XmlAllostery<T extends AllostericEffector>	XML implementation of Allostery
class	XmlPreAssembly	Xml implementation of preassembly

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

Modifier and Type	Method	Description
Collection<CooperativeEffect>	AbstractXmlModelledInteraction.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlBasicInteractionComplexWrapper.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlInteractionEvidenceComplexWrapper.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlModelledInteractionComplexWrapper.getCooperativeEffects()	getCooperativeEffects.

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

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

Modifier and Type	Class	Description
class	AbstractXmlCooperativeEffect	Abstract class for XML 3.0 cooperative effects
class	XmlAllostery	XML 3.0 implementation of Allostery
class	XmlPreAssembly	Xml 3.0 implementation of preassembly

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

Modifier and Type	Method	Description
Collection<CooperativeEffect>	AbstractXmlModelledInteraction.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlBasicInteractionComplexWrapper.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlInteractionEvidenceComplexWrapper.getCooperativeEffects()	Getter for the field cooperativeEffects.
Collection<CooperativeEffect>	XmlModelledInteraction.getCooperativeEffects()	getCooperativeEffects.
Collection<CooperativeEffect>	XmlModelledInteractionComplexWrapper.getCooperativeEffects()	getCooperativeEffects.
List<CooperativeEffect>	XmlModelledInteraction.JAXBCooperativeEffectWrapper.getJAXBCooperativeEffects()

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

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

Modifier and Type	Method	Description
Collection<CooperativeEffect>	AbstractComplexRef.getCooperativeEffects()	getCooperativeEffects.

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

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

Modifier and Type	Method	Description
Collection<CooperativeEffect>	AbstractComplexRef.getCooperativeEffects()	getCooperativeEffects.

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

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

Modifier and Type	Method	Description
Collection<CooperativeEffect>	AbstractComplexRef.getCooperativeEffects()	getCooperativeEffects.

Uses of CooperativeEffect in psidev.psi.mi.jami.xml.utils

Methods in psidev.psi.mi.jami.xml.utils that return CooperativeEffect

Modifier and Type	Method	Description
static CooperativeEffect	PsiXmlUtils.extractCooperativeEffectFrom(PsiXmlVersion version, Collection<Annotation> annots, Collection<Experiment> experiments, PsiXmlParserListener listener)	extractCooperativeEffectFrom.