Uses of Interface
psidev.psi.mi.jami.model.Organism
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Uses of Organism in psidev.psi.mi.jami.bridges.fetcher
Methods in psidev.psi.mi.jami.bridges.fetcher that return Organism Modifier and Type Method Description OrganismOrganismFetcher. fetchByTaxID(int taxID)Finds the complete organism record matching the provided TaxID number.Methods in psidev.psi.mi.jami.bridges.fetcher that return types with arguments of type Organism Modifier and Type Method Description Collection<Organism>OrganismFetcher. fetchByTaxIDs(Collection<Integer> taxIDs)Finds the complete organism records matching the provided TaxID numbers. -
Uses of Organism in psidev.psi.mi.jami.bridges.fetcher.mock
Methods in psidev.psi.mi.jami.bridges.fetcher.mock that return Organism Modifier and Type Method Description OrganismFailingOrganismFetcher. fetchByTaxID(int taxID)Finds the complete organism record matching the provided TaxID number.OrganismMockOrganismFetcher. fetchByTaxID(int taxID)Finds the complete organism record matching the provided TaxID number.Methods in psidev.psi.mi.jami.bridges.fetcher.mock that return types with arguments of type Organism Modifier and Type Method Description Collection<Organism>FailingOrganismFetcher. fetchByTaxIDs(Collection<Integer> taxIDs)Finds the complete organism records matching the provided TaxID numbers.Collection<Organism>MockOrganismFetcher. fetchByTaxIDs(Collection<Integer> taxIDs)Finds the complete organism records matching the provided TaxID numbers. -
Uses of Organism in psidev.psi.mi.jami.bridges.uniprot.taxonomy
Methods in psidev.psi.mi.jami.bridges.uniprot.taxonomy that return Organism Modifier and Type Method Description OrganismCachedUniprotTaxonomyFetcher. fetchByTaxID(int taxID)Finds the complete organism record matching the provided TaxID number.OrganismUniprotTaxonomyFetcher. fetchByTaxID(int taxID)Finds the complete organism record matching the provided TaxID number.Methods in psidev.psi.mi.jami.bridges.uniprot.taxonomy that return types with arguments of type Organism Modifier and Type Method Description Collection<Organism>CachedUniprotTaxonomyFetcher. fetchByTaxIDs(Collection<Integer> taxIDs)Finds the complete organism records matching the provided TaxID numbers.Collection<Organism>UniprotTaxonomyFetcher. fetchByTaxIDs(Collection<Integer> taxIDs)Finds the complete organism records matching the provided TaxID numbers. -
Uses of Organism in psidev.psi.mi.jami.bridges.uniprot.util
Methods in psidev.psi.mi.jami.bridges.uniprot.util that return Organism Modifier and Type Method Description static OrganismUniprotUtils. createOrganismFromEntry(uk.ac.ebi.kraken.interfaces.uniprot.UniProtEntry entity)createOrganismFromEntry. -
Uses of Organism in psidev.psi.mi.jami.crosslink.extension
Constructors in psidev.psi.mi.jami.crosslink.extension with parameters of type Organism Constructor Description CsvExperimentalParticipantPool(String poolName, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for CsvExperimentalParticipantPool.CsvExperimentalParticipantPool(String poolName, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for CsvExperimentalParticipantPool.CsvExperimentalParticipantPool(InteractionEvidence interaction, String poolName, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for CsvExperimentalParticipantPool.CsvExperimentalParticipantPool(InteractionEvidence interaction, String poolName, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for CsvExperimentalParticipantPool.CsvParticipantEvidence(InteractionEvidence interaction, Interactor interactor, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for CsvParticipantEvidence.CsvParticipantEvidence(InteractionEvidence interaction, Interactor interactor, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for CsvParticipantEvidence.CsvParticipantEvidence(Interactor interactor, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for CsvParticipantEvidence.CsvParticipantEvidence(Interactor interactor, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for CsvParticipantEvidence.CsvProtein(String name, String fullName, CvTerm type, Organism organism)Constructor for CsvProtein.CsvProtein(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for CsvProtein.CsvProtein(String name, String fullName, Organism organism)Constructor for CsvProtein.CsvProtein(String name, String fullName, Organism organism, Xref uniqueId)Constructor for CsvProtein.CsvProtein(String name, CvTerm type, Organism organism)Constructor for CsvProtein.CsvProtein(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for CsvProtein.CsvProtein(String name, Organism organism)Constructor for CsvProtein.CsvProtein(String name, Organism organism, Xref uniqueId)Constructor for CsvProtein. -
Uses of Organism in psidev.psi.mi.jami.datasource
Methods in psidev.psi.mi.jami.datasource that return types with arguments of type Organism Modifier and Type Method Description Iterator<Organism>OrganismStream. getOrganismsIterator()The organisms iterator for this datasource. -
Uses of Organism in psidev.psi.mi.jami.enricher.impl.full
Methods in psidev.psi.mi.jami.enricher.impl.full with parameters of type Organism Modifier and Type Method Description voidFullFeatureEvidenceEnricher. onOrganismUpdate(Protein interactor, Organism o)Listen to the event where the organism of a interactor has been initialised.voidFullFeatureEvidenceUpdater. onOrganismUpdate(Protein interactor, Organism o)Listen to the event where the organism of a interactor has been initialised.voidFullFeatureUpdater. onOrganismUpdate(Protein interactor, Organism o)Listen to the event where the organism of a interactor has been initialised.protected voidFullOrganismEnricher. processAliases(Organism organismToEnrich, Organism organismFetched)processAliases.protected voidFullOrganismUpdater. processAliases(Organism organismToEnrich, Organism organismFetched)processAliases.protected voidFullOrganismEnricher. processCellType(Organism entityToEnrich, Organism fetched)processCellType.protected voidFullOrganismUpdater. processCellType(Organism entityToEnrich, Organism fetched)processCellType.protected voidFullOrganismEnricher. processCompartment(Organism entityToEnrich, Organism fetched)processCompartment.protected voidFullOrganismUpdater. processCompartment(Organism entityToEnrich, Organism fetched)processCompartment.protected voidFullOrganismEnricher. processOtherProperties(Organism organismToEnrich, Organism organismFetched)processOtherProperties.protected voidFullOrganismUpdater. processOtherProperties(Organism organismToEnrich, Organism organismFetched)processOtherProperties.protected voidFullOrganismEnricher. processTissue(Organism entityToEnrich, Organism fetched)processTissue.protected voidFullOrganismUpdater. processTissue(Organism entityToEnrich, Organism fetched)processTissue. -
Uses of Organism in psidev.psi.mi.jami.enricher.impl.minimal
Methods in psidev.psi.mi.jami.enricher.impl.minimal that return Organism Modifier and Type Method Description OrganismMinimalOrganismEnricher. find(Organism objectToEnrich)find.Methods in psidev.psi.mi.jami.enricher.impl.minimal with parameters of type Organism Modifier and Type Method Description voidMinimalOrganismEnricher. enrich(Organism organismToEnrich, Organism organismFetched)enrich.OrganismMinimalOrganismEnricher. find(Organism objectToEnrich)find.protected voidMinimalOrganismEnricher. onEnrichedVersionNotFound(Organism objectToEnrich)onEnrichedVersionNotFound.voidMinimalFeatureEnricher. onOrganismUpdate(Protein interactor, Organism o)Listen to the event where the organism of a interactor has been initialised.voidMinimalFeatureEvidenceUpdater. onOrganismUpdate(Protein interactor, Organism o)Listen to the event where the organism of a interactor has been initialised.protected voidMinimalOrganismEnricher. processCommonName(Organism organismToEnrich, Organism organismFetched)processCommonName.protected voidMinimalOrganismUpdater. processCommonName(Organism organismToEnrich, Organism organismFetched)processCommonName.protected voidMinimalOrganismEnricher. processOtherProperties(Organism organismToEnrich, Organism organismFetched)processOtherProperties.protected voidMinimalOrganismEnricher. processScientificName(Organism organismToEnrich, Organism organismFetched)processScientificName.protected voidMinimalOrganismUpdater. processScientificName(Organism organismToEnrich, Organism organismFetched)processScientificName.protected voidMinimalOrganismEnricher. processTaxid(Organism organismToEnrich, Organism organismFetched)processTaxid.protected voidMinimalOrganismUpdater. processTaxid(Organism organismToEnrich, Organism organismFetched)processTaxid. -
Uses of Organism in psidev.psi.mi.jami.enricher.listener.impl
Methods in psidev.psi.mi.jami.enricher.listener.impl with parameters of type Organism Modifier and Type Method Description voidOrganismEnricherListenerManager. onAddedAlias(Organism organism, Alias added)Listen to the event where an alias has been added to the object aliases.voidOrganismEnricherListenerManager. onCellTypeUpdate(Organism organism, CvTerm oldType)Listen to the event where the cell type has been initialised.voidOrganismEnricherListenerManager. onCommonNameUpdate(Organism organism, String oldCommonName)Listen to the event where the commonName of an organism has been changed.voidOrganismEnricherListenerManager. onCompartmentUpdate(Organism organism, CvTerm oldType)Listen to the event where the organism compartment has been initialised.voidParticipantEvidenceEnricherListenerManager. onExpressedInUpdate(P participant, Organism oldOrganism)onExpressedInUpdatevoidExperimentEnricherListenerManager. onHostOrganismUpdate(Experiment experiment, Organism oldOrganism)onHostOrganismUpdatevoidComplexEnricherListenerManager. onOrganismUpdate(Complex interactor, Organism oldOrganism)Listen to the event where the organism of a interactor has been initialised.voidInteractorEnricherListenerManager. onOrganismUpdate(T interactor, Organism org)Listen to the event where the organism of a interactor has been initialised.voidOrganismEnricherListenerManager. onRemovedAlias(Organism organism, Alias removed)Listen to the event where an alias has been removed from the object aliases.voidOrganismEnricherListenerManager. onScientificNameUpdate(Organism organism, String oldScientificName)Listen to the event where the scientificName of an organism has been changed.voidOrganismEnricherListenerManager. onTaxidUpdate(Organism organism, String oldTaxid)Listen to the event where the taxid of an organism has been changed.voidOrganismEnricherListenerManager. onTissueUpdate(Organism organism, CvTerm oldType)Listen to the event where the organism tissue has been initialised. -
Uses of Organism in psidev.psi.mi.jami.enricher.listener.impl.log
Methods in psidev.psi.mi.jami.enricher.listener.impl.log with parameters of type Organism Modifier and Type Method Description voidOrganismEnricherLogger. onEnrichmentComplete(Organism organism, EnrichmentStatus status, String message)onEnrichmentComplete.voidOrganismEnricherLogger. onEnrichmentError(Organism object, String message, Exception e)onEnrichmentError. -
Uses of Organism in psidev.psi.mi.jami.enricher.listener.impl.writer
Methods in psidev.psi.mi.jami.enricher.listener.impl.writer with parameters of type Organism Modifier and Type Method Description voidOrganismEnricherStatisticsWriter. onAddedAlias(Organism organism, Alias added)Listen to the event where an alias has been added to the object aliases.voidOrganismEnricherStatisticsWriter. onCellTypeUpdate(Organism organism, CvTerm oldType)Listen to the event where the cell type has been initialised.voidOrganismEnricherStatisticsWriter. onCommonNameUpdate(Organism organism, String oldCommonName)Listen to the event where the commonName of an organism has been changed.voidOrganismEnricherStatisticsWriter. onCompartmentUpdate(Organism organism, CvTerm oldType)Listen to the event where the organism compartment has been initialised.voidParticipantEvidenceEnricherStatisticsWriter. onExpressedInUpdate(P participant, Organism oldOrganism)onExpressedInUpdatevoidExperimentEnricherStatisticsWriter. onHostOrganismUpdate(Experiment experiment, Organism oldOrganism)onHostOrganismUpdatevoidComplexEnricherStatisticsWriter. onOrganismUpdate(Complex interactor, Organism oldOrganism)Listen to the event where the organism of a interactor has been initialised.voidInteractorEnricherStatisticsWriter. onOrganismUpdate(T interactor, Organism organism)Listen to the event where the organism of a interactor has been initialised.voidOrganismEnricherStatisticsWriter. onRemovedAlias(Organism organism, Alias removed)Listen to the event where an alias has been removed from the object aliases.voidOrganismEnricherStatisticsWriter. onScientificNameUpdate(Organism organism, String oldScientificName)Listen to the event where the scientificName of an organism has been changed.voidOrganismEnricherStatisticsWriter. onTaxidUpdate(Organism organism, String oldTaxid)Listen to the event where the taxid of an organism has been changed.voidOrganismEnricherStatisticsWriter. onTissueUpdate(Organism organism, CvTerm oldType)Listen to the event where the organism tissue has been initialised. -
Uses of Organism in psidev.psi.mi.jami.html
Methods in psidev.psi.mi.jami.html with parameters of type Organism Modifier and Type Method Description protected voidAbstractMIHtmlWriter. writeOrganism(String label, Organism organism)writeOrganism -
Uses of Organism in psidev.psi.mi.jami.json.elements
Methods in psidev.psi.mi.jami.json.elements that return types with arguments of type Organism Modifier and Type Method Description JsonElementWriter<Organism>SimpleJsonExperimentWriter. getHostOrganismWriter()Getter for the fieldhostOrganismWriter.JsonElementWriter<Organism>SimpleJsonParticipantEvidenceWriter. getHostOrganismWriter()Getter for the fieldhostOrganismWriter.JsonElementWriter<Organism>SimpleJsonInteractorWriter. getOrganismWriter()Getter for the fieldorganismWriter.JsonElementWriter<Organism>SimpleJsonModelledInteractionWriter. getOrganismWriter()Getter for the fieldorganismWriter.Methods in psidev.psi.mi.jami.json.elements with parameters of type Organism Modifier and Type Method Description voidSimpleJsonOrganismWriter. write(Organism object)write.protected voidSimpleJsonHostOrganismWriter. writeOtherProperties(Organism object)writeOtherProperties.protected voidSimpleJsonOrganismWriter. writeOtherProperties(Organism object)writeOtherProperties.Method parameters in psidev.psi.mi.jami.json.elements with type arguments of type Organism Modifier and Type Method Description voidSimpleJsonExperimentWriter. setHostOrganismWriter(JsonElementWriter<Organism> hostOrganismWriter)Setter for the fieldhostOrganismWriter.voidSimpleJsonParticipantEvidenceWriter. setHostOrganismWriter(JsonElementWriter<Organism> hostOrganismWriter)Setter for the fieldhostOrganismWriter.voidSimpleJsonInteractorWriter. setOrganismWriter(JsonElementWriter<Organism> organismWriter)Setter for the fieldorganismWriter.voidSimpleJsonModelledInteractionWriter. setOrganismWriter(JsonElementWriter<Organism> organismWriter)Setter for the fieldorganismWriter. -
Uses of Organism in psidev.psi.mi.jami.listener
Methods in psidev.psi.mi.jami.listener with parameters of type Organism Modifier and Type Method Description voidOrganismChangeListener. onCellTypeUpdate(Organism organism, CvTerm oldType)Listen to the event where the cell type has been initialised.voidOrganismChangeListener. onCommonNameUpdate(Organism organism, String oldCommonName)Listen to the event where the commonName of an organism has been changed.voidOrganismChangeListener. onCompartmentUpdate(Organism organism, CvTerm oldType)Listen to the event where the organism compartment has been initialised.voidParticipantEvidenceChangeListener. onExpressedInUpdate(F participant, Organism oldOrganism)onExpressedInUpdatevoidExperimentChangeListener. onHostOrganismUpdate(Experiment experiment, Organism oldOrganism)onHostOrganismUpdatevoidInteractorChangeListener. onOrganismUpdate(T interactor, Organism oldOrganism)Listen to the event where the organism of a interactor has been initialised.voidOrganismChangeListener. onScientificNameUpdate(Organism organism, String oldScientificName)Listen to the event where the scientificName of an organism has been changed.voidOrganismChangeListener. onTaxidUpdate(Organism organism, String oldTaxid)Listen to the event where the taxid of an organism has been changed.voidOrganismChangeListener. onTissueUpdate(Organism organism, CvTerm oldType)Listen to the event where the organism tissue has been initialised. -
Uses of Organism in psidev.psi.mi.jami.listener.impl
Methods in psidev.psi.mi.jami.listener.impl with parameters of type Organism Modifier and Type Method Description voidOrganismChangeLogger. onAddedAlias(Organism organism, Alias added)Listen to the event where an alias has been added to the object aliases.voidOrganismChangeLogger. onCellTypeUpdate(Organism organism, CvTerm oldType)Listen to the event where the cell type has been initialised.voidOrganismChangeLogger. onCommonNameUpdate(Organism organism, String oldCommonName)Listen to the event where the commonName of an organism has been changed.voidOrganismChangeLogger. onCompartmentUpdate(Organism organism, CvTerm oldType)Listen to the event where the organism compartment has been initialised.voidParticipantEvidenceChangeLogger. onExpressedInUpdate(T entity, Organism oldOrganism)onExpressedInUpdatevoidExperimentChangeLogger. onHostOrganismUpdate(Experiment experiment, Organism oldOrganism)onHostOrganismUpdatevoidInteractorChangeLogger. onOrganismUpdate(T protein, Organism old)Listen to the event where the organism of a interactor has been initialised.voidOrganismChangeLogger. onRemovedAlias(Organism organism, Alias removed)Listen to the event where an alias has been removed from the object aliases.voidOrganismChangeLogger. onScientificNameUpdate(Organism organism, String oldScientificName)Listen to the event where the scientificName of an organism has been changed.voidOrganismChangeLogger. onTaxidUpdate(Organism organism, String oldTaxid)Listen to the event where the taxid of an organism has been changed.voidOrganismChangeLogger. onTissueUpdate(Organism organism, CvTerm oldType)Listen to the event where the organism tissue has been initialised. -
Uses of Organism in psidev.psi.mi.jami.model
Methods in psidev.psi.mi.jami.model that return Organism Modifier and Type Method Description OrganismParticipantEvidence. getExpressedInOrganism()The organisms in which the participant has been expressed.OrganismExperiment. getHostOrganism()The host organism where the interaction took place in this experiment.OrganismInteractor. getOrganism()The original source organism for this interactor.Methods in psidev.psi.mi.jami.model with parameters of type Organism Modifier and Type Method Description voidParticipantEvidence. setExpressedInOrganism(Organism organism)Sets the expressed in organismvoidExperiment. setHostOrganism(Organism organism)Sets the host organism of an experimentvoidInteractor. setOrganism(Organism organism)Sets the source organism of this interactor -
Uses of Organism in psidev.psi.mi.jami.model.impl
Classes in psidev.psi.mi.jami.model.impl that implement Organism Modifier and Type Class Description classDefaultOrganismDefault implementation for organism Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousOrganismComparatorMethods in psidev.psi.mi.jami.model.impl that return Organism Modifier and Type Method Description OrganismDefaultExperimentalParticipantPool. getExpressedInOrganism()getExpressedInOrganismOrganismDefaultParticipantEvidence. getExpressedInOrganism()getExpressedInOrganismOrganismDefaultExperiment. getHostOrganism()Getter for the fieldhostOrganism.OrganismDefaultInteractor. getOrganism()Getter for the fieldorganism.Methods in psidev.psi.mi.jami.model.impl with parameters of type Organism Modifier and Type Method Description voidDefaultExperimentalParticipantPool. setExpressedInOrganism(Organism organism)Sets the expressed in organismvoidDefaultParticipantEvidence. setExpressedInOrganism(Organism organism)Sets the expressed in organismvoidDefaultExperiment. setHostOrganism(Organism organism)Sets the host organism of an experimentvoidDefaultInteractor. setOrganism(Organism organism)Sets the source organism of this interactorConstructors in psidev.psi.mi.jami.model.impl with parameters of type Organism Constructor Description DefaultBioactiveEntity(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, String uniqueChebi)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, String fullName, Organism organism)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, String fullName, Organism organism, String uniqueChebi)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, CvTerm type, Organism organism)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, CvTerm type, Organism organism, String uniqueChebi)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, Organism organism)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, Organism organism, String uniqueChebi)Constructor for DefaultBioactiveEntity.DefaultBioactiveEntity(String name, Organism organism, Xref uniqueId)Constructor for DefaultBioactiveEntity.DefaultComplex(String name, String fullName, CvTerm interactorType, Organism organism)Constructor for DefaultComplex.DefaultComplex(String name, String fullName, CvTerm interactorType, Organism organism, Xref uniqueId)Constructor for DefaultComplex.DefaultComplex(String name, String fullName, Organism organism)Constructor for DefaultComplex.DefaultComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultComplex.DefaultComplex(String name, CvTerm interactorType, Organism organism)Constructor for DefaultComplex.DefaultComplex(String name, CvTerm interactorType, Organism organism, Xref uniqueId)Constructor for DefaultComplex.DefaultComplex(String name, Organism organism)Constructor for DefaultComplex.DefaultComplex(String name, Organism organism, Xref uniqueId)Constructor for DefaultComplex.DefaultExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for DefaultExperiment.DefaultExperimentalParticipantPool(String poolName, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultExperimentalParticipantPool.DefaultExperimentalParticipantPool(String poolName, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultExperimentalParticipantPool.DefaultExperimentalParticipantPool(InteractionEvidence interaction, String poolName, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultExperimentalParticipantPool.DefaultExperimentalParticipantPool(InteractionEvidence interaction, String poolName, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultExperimentalParticipantPool.DefaultGene(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultGene.DefaultGene(String name, String fullName, CvTerm type, Organism organism, Xref ensembl)Constructor for DefaultGene.DefaultGene(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId, Xref ensembl)Constructor for DefaultGene.DefaultGene(String name, String fullName, Organism organism)Constructor for DefaultGene.DefaultGene(String name, String fullName, Organism organism, String ensembl)Constructor for DefaultGene.DefaultGene(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultGene.DefaultGene(String name, CvTerm type, Organism organism)Constructor for DefaultGene.DefaultGene(String name, CvTerm type, Organism organism, Xref ensembl)Constructor for DefaultGene.DefaultGene(String name, CvTerm type, Organism organism, Xref uniqueId, Xref ensembl)Constructor for DefaultGene.DefaultGene(String name, Organism organism)Constructor for DefaultGene.DefaultGene(String name, Organism organism, String ensembl)Constructor for DefaultGene.DefaultGene(String name, Organism organism, Xref uniqueId)Constructor for DefaultGene.DefaultInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultInteractor.DefaultInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultInteractor.DefaultInteractor(String name, String fullName, Organism organism)Constructor for DefaultInteractor.DefaultInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultInteractor.DefaultInteractor(String name, CvTerm type, Organism organism)Constructor for DefaultInteractor.DefaultInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultInteractor.DefaultInteractor(String name, Organism organism)Constructor for DefaultInteractor.DefaultInteractor(String name, Organism organism, Xref uniqueId)Constructor for DefaultInteractor.DefaultInteractorPool(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultInteractorPool.DefaultInteractorPool(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultInteractorPool.DefaultInteractorPool(String name, String fullName, Organism organism)Constructor for DefaultInteractorPool.DefaultInteractorPool(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultInteractorPool.DefaultInteractorPool(String name, CvTerm type, Organism organism)Constructor for DefaultInteractorPool.DefaultInteractorPool(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultInteractorPool.DefaultInteractorPool(String name, Organism organism)Constructor for DefaultInteractorPool.DefaultInteractorPool(String name, Organism organism, Xref uniqueId)Constructor for DefaultInteractorPool.DefaultMolecule(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultMolecule.DefaultMolecule(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultMolecule.DefaultMolecule(String name, String fullName, Organism organism)Constructor for DefaultMolecule.DefaultMolecule(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultMolecule.DefaultMolecule(String name, CvTerm type, Organism organism)Constructor for DefaultMolecule.DefaultMolecule(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultMolecule.DefaultMolecule(String name, Organism organism)Constructor for DefaultMolecule.DefaultMolecule(String name, Organism organism, Xref uniqueId)Constructor for DefaultMolecule.DefaultNamedExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for DefaultNamedExperiment.DefaultNamedParticipantEvidence(InteractionEvidence interaction, Interactor interactor, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultNamedParticipantEvidence.DefaultNamedParticipantEvidence(InteractionEvidence interaction, Interactor interactor, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultNamedParticipantEvidence.DefaultNamedParticipantEvidence(Interactor interactor, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultNamedParticipantEvidence.DefaultNamedParticipantEvidence(Interactor interactor, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultNamedParticipantEvidence.DefaultNucleicAcid(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultNucleicAcid.DefaultNucleicAcid(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultNucleicAcid.DefaultNucleicAcid(String name, String fullName, Organism organism)Constructor for DefaultNucleicAcid.DefaultNucleicAcid(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultNucleicAcid.DefaultNucleicAcid(String name, CvTerm type, Organism organism)Constructor for DefaultNucleicAcid.DefaultNucleicAcid(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultNucleicAcid.DefaultNucleicAcid(String name, Organism organism)Constructor for DefaultNucleicAcid.DefaultNucleicAcid(String name, Organism organism, Xref uniqueId)Constructor for DefaultNucleicAcid.DefaultParticipantEvidence(InteractionEvidence interaction, Interactor interactor, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultParticipantEvidence.DefaultParticipantEvidence(InteractionEvidence interaction, Interactor interactor, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultParticipantEvidence.DefaultParticipantEvidence(Interactor interactor, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultParticipantEvidence.DefaultParticipantEvidence(Interactor interactor, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for DefaultParticipantEvidence.DefaultPolymer(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultPolymer.DefaultPolymer(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultPolymer.DefaultPolymer(String name, String fullName, Organism organism)Constructor for DefaultPolymer.DefaultPolymer(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultPolymer.DefaultPolymer(String name, CvTerm type, Organism organism)Constructor for DefaultPolymer.DefaultPolymer(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultPolymer.DefaultPolymer(String name, Organism organism)Constructor for DefaultPolymer.DefaultPolymer(String name, Organism organism, Xref uniqueId)Constructor for DefaultPolymer.DefaultProtein(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultProtein.DefaultProtein(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultProtein.DefaultProtein(String name, String fullName, Organism organism)Constructor for DefaultProtein.DefaultProtein(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultProtein.DefaultProtein(String name, CvTerm type, Organism organism)Constructor for DefaultProtein.DefaultProtein(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultProtein.DefaultProtein(String name, Organism organism)Constructor for DefaultProtein.DefaultProtein(String name, Organism organism, Xref uniqueId)Constructor for DefaultProtein. -
Uses of Organism in psidev.psi.mi.jami.tab.extension
Classes in psidev.psi.mi.jami.tab.extension that implement Organism Modifier and Type Class Description classMitabOrganismMitab extension of Organism.Constructors in psidev.psi.mi.jami.tab.extension with parameters of type Organism Constructor Description MitabBioactiveEntity(String name, String fullName, CvTerm type, Organism organism)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, String uniqueChebi)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, String fullName, Organism organism)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, String fullName, Organism organism, String uniqueChebi)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, String fullName, Organism organism, Xref uniqueId)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, CvTerm type, Organism organism)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, CvTerm type, Organism organism, String uniqueChebi)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, Organism organism)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, Organism organism, String uniqueChebi)Constructor for MitabBioactiveEntity.MitabBioactiveEntity(String name, Organism organism, Xref uniqueId)Constructor for MitabBioactiveEntity.MitabComplex(String name, String fullName, CvTerm interactorType, Organism organism)Constructor for MitabComplex.MitabComplex(String name, String fullName, CvTerm interactorType, Organism organism, Xref uniqueId)Constructor for MitabComplex.MitabComplex(String name, String fullName, Organism organism)Constructor for MitabComplex.MitabComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for MitabComplex.MitabComplex(String name, CvTerm interactorType, Organism organism)Constructor for MitabComplex.MitabComplex(String name, CvTerm interactorType, Organism organism, Xref uniqueId)Constructor for MitabComplex.MitabComplex(String name, Organism organism)Constructor for MitabComplex.MitabComplex(String name, Organism organism, Xref uniqueId)Constructor for MitabComplex.MitabExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for MitabExperiment.MitabGene(String name, String fullName, Organism organism)Constructor for MitabGene.MitabGene(String name, String fullName, Organism organism, String ensembl)Constructor for MitabGene.MitabGene(String name, String fullName, Organism organism, Xref uniqueId)Constructor for MitabGene.MitabGene(String name, Organism organism)Constructor for MitabGene.MitabGene(String name, Organism organism, String ensembl)Constructor for MitabGene.MitabGene(String name, Organism organism, Xref uniqueId)Constructor for MitabGene.MitabInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for MitabInteractor.MitabInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabInteractor.MitabInteractor(String name, String fullName, Organism organism)Constructor for MitabInteractor.MitabInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for MitabInteractor.MitabInteractor(String name, CvTerm type, Organism organism)Constructor for MitabInteractor.MitabInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabInteractor.MitabInteractor(String name, Organism organism)Constructor for MitabInteractor.MitabInteractor(String name, Organism organism, Xref uniqueId)Constructor for MitabInteractor.MitabInteractorPool(String name, String fullName, CvTerm type, Organism organism)Constructor for MitabInteractorPool.MitabInteractorPool(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabInteractorPool.MitabInteractorPool(String name, String fullName, Organism organism)Constructor for MitabInteractorPool.MitabInteractorPool(String name, String fullName, Organism organism, Xref uniqueId)Constructor for MitabInteractorPool.MitabInteractorPool(String name, CvTerm type, Organism organism)Constructor for MitabInteractorPool.MitabInteractorPool(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabInteractorPool.MitabInteractorPool(String name, Organism organism)Constructor for MitabInteractorPool.MitabInteractorPool(String name, Organism organism, Xref uniqueId)Constructor for MitabInteractorPool.MitabMolecule(String name, String fullName, CvTerm type, Organism organism)Constructor for MitabMolecule.MitabMolecule(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabMolecule.MitabMolecule(String name, String fullName, Organism organism)Constructor for MitabMolecule.MitabMolecule(String name, String fullName, Organism organism, Xref uniqueId)Constructor for MitabMolecule.MitabMolecule(String name, CvTerm type, Organism organism)Constructor for MitabMolecule.MitabMolecule(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabMolecule.MitabMolecule(String name, Organism organism)Constructor for MitabMolecule.MitabMolecule(String name, Organism organism, Xref uniqueId)Constructor for MitabMolecule.MitabNucleicAcid(String name, String fullName, CvTerm type, Organism organism)Constructor for MitabNucleicAcid.MitabNucleicAcid(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabNucleicAcid.MitabNucleicAcid(String name, String fullName, Organism organism)Constructor for MitabNucleicAcid.MitabNucleicAcid(String name, String fullName, Organism organism, Xref uniqueId)Constructor for MitabNucleicAcid.MitabNucleicAcid(String name, CvTerm type, Organism organism)Constructor for MitabNucleicAcid.MitabNucleicAcid(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabNucleicAcid.MitabNucleicAcid(String name, Organism organism)Constructor for MitabNucleicAcid.MitabNucleicAcid(String name, Organism organism, Xref uniqueId)Constructor for MitabNucleicAcid.MitabParticipantEvidence(InteractionEvidence interaction, Interactor interactor, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for MitabParticipantEvidence.MitabParticipantEvidence(InteractionEvidence interaction, Interactor interactor, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for MitabParticipantEvidence.MitabParticipantEvidence(Interactor interactor, CvTerm bioRole, CvTerm expRole, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for MitabParticipantEvidence.MitabParticipantEvidence(Interactor interactor, CvTerm bioRole, CvTerm expRole, Stoichiometry stoichiometry, Organism expressedIn, CvTerm participantIdentificationMethod)Constructor for MitabParticipantEvidence.MitabPolymer(String name, String fullName, CvTerm type, Organism organism)Constructor for MitabPolymer.MitabPolymer(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabPolymer.MitabPolymer(String name, String fullName, Organism organism)Constructor for MitabPolymer.MitabPolymer(String name, String fullName, Organism organism, Xref uniqueId)Constructor for MitabPolymer.MitabPolymer(String name, CvTerm type, Organism organism)Constructor for MitabPolymer.MitabPolymer(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabPolymer.MitabPolymer(String name, Organism organism)Constructor for MitabPolymer.MitabPolymer(String name, Organism organism, Xref uniqueId)Constructor for MitabPolymer.MitabProtein(String name, String fullName, CvTerm type, Organism organism)Constructor for MitabProtein.MitabProtein(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabProtein.MitabProtein(String name, String fullName, Organism organism)Constructor for MitabProtein.MitabProtein(String name, String fullName, Organism organism, Xref uniqueId)Constructor for MitabProtein.MitabProtein(String name, CvTerm type, Organism organism)Constructor for MitabProtein.MitabProtein(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for MitabProtein.MitabProtein(String name, Organism organism)Constructor for MitabProtein.MitabProtein(String name, Organism organism, Xref uniqueId)Constructor for MitabProtein. -
Uses of Organism in psidev.psi.mi.jami.tab.io.writer.feeder
Methods in psidev.psi.mi.jami.tab.io.writer.feeder with parameters of type Organism Modifier and Type Method Description voidAbstractMitabColumnFeeder. writeOrganism(Organism organism)Write an organism.voidMitabColumnFeeder. writeOrganism(Organism organism)Write an organism. -
Uses of Organism in psidev.psi.mi.jami.utils
Methods in psidev.psi.mi.jami.utils that return Organism Modifier and Type Method Description static OrganismOrganismUtils. createChemicalSynthesisOrganism()createChemicalSynthesisOrganismstatic OrganismOrganismUtils. createInSilicoOrganism()createInSilicoOrganismstatic OrganismOrganismUtils. createInVitroOrganism()createInVitroOrganismstatic OrganismOrganismUtils. createInVivoOrganism()createInVivoOrganismstatic OrganismOrganismUtils. createSpecialistOrganism(int taxID)If the TaxId is one of the reserved numbers (-5 to -1), it denotes a non-real organism.static OrganismOrganismUtils. createUnknownOrganism()createUnknownOrganismMethods in psidev.psi.mi.jami.utils with parameters of type Organism Modifier and Type Method Description static NamedExperimentExperimentUtils. createExperiment(String name, String pubmedId, CvTerm interactionDetectionMethod, Organism hostOrganism)createExperimentstatic ExperimentExperimentUtils. createExperiment(String pubmedId, CvTerm interactionDetectionMethod, Organism hostOrganism)createExperiment -
Uses of Organism in psidev.psi.mi.jami.utils.clone
Methods in psidev.psi.mi.jami.utils.clone with parameters of type Organism Modifier and Type Method Description static voidOrganismCloner. copyAndOverrideOrganismProperties(Organism source, Organism target)This method will copy properties of organism source in organism target and will override all the other properties of Target organism. -
Uses of Organism in psidev.psi.mi.jami.utils.comparator.organism
Methods in psidev.psi.mi.jami.utils.comparator.organism with parameters of type Organism Modifier and Type Method Description static booleanDefaultOrganismComparator. areEquals(Organism organism1, Organism organism2)Use DefaultOrganismComparator to know if two organism are equals.static booleanOrganismTaxIdComparator. areEquals(Organism organism1, Organism organism2)Use OrganismTaxIdComparator to know if two organisms are equals.static booleanUnambiguousOrganismComparator. areEquals(Organism organism1, Organism organism2)Use UnambiguousOrganismComparator to know if two organism are equals.intOrganismComparator. compare(Organism organism1, Organism organism2)It will first look at the taxids.intOrganismTaxIdComparator. compare(Organism organism1, Organism organism2)Comparison is based on taxIds only.intUnambiguousOrganismComparator. compare(Organism organism1, Organism organism2)It will first look at the taxids.static intOrganismTaxIdComparator. hashCode(Organism organism)hashCodestatic intUnambiguousOrganismComparator. hashCode(Organism organism) -
Uses of Organism in psidev.psi.mi.jami.xml.io.writer.elements
Methods in psidev.psi.mi.jami.xml.io.writer.elements that return types with arguments of type Organism Modifier and Type Method Description static PsiXmlElementWriter<Organism>PsiXmlElementWriterFactory. createHostOrganismWriter(XMLStreamWriter streamWriter, PsiXmlVersion version, boolean extended, PsiXmlObjectCache objectIndex, PsiXmlElementWriter<Alias> aliasWriter, PsiXmlElementWriter<Annotation> annotationWriter, PsiXmlXrefWriter xrefWriter, PsiXmlVariableNameWriter<CvTerm> openCvWriter)createHostOrganismWriter.static PsiXmlElementWriter<Organism>PsiXmlElementWriterFactory. createOrganismWriter(XMLStreamWriter streamWriter, boolean extended, PsiXmlElementWriter<Alias> aliasWriter, PsiXmlElementWriter<Annotation> annotationWriter, PsiXmlXrefWriter xrefWriter, PsiXmlVariableNameWriter<CvTerm> openCvWriter)createOrganismWriter. -
Uses of Organism in psidev.psi.mi.jami.xml.io.writer.elements.impl
Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl that return types with arguments of type Organism Modifier and Type Method Description PsiXmlElementWriter<Organism>XmlInteractorWriter. getOrganismWriter()Getter for the fieldorganismWriter.Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl with parameters of type Organism Modifier and Type Method Description protected voidXmlHostOrganismWriter. writeOtherProperties(Organism object)writeOtherProperties.protected voidXmlOrganismWriter. writeOtherProperties(Organism object)writeOtherProperties.Method parameters in psidev.psi.mi.jami.xml.io.writer.elements.impl with type arguments of type Organism Modifier and Type Method Description voidXmlInteractorWriter. setOrganismWriter(PsiXmlElementWriter<Organism> organismWriter)Setter for the fieldorganismWriter. -
Uses of Organism in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts
Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts that return types with arguments of type Organism Modifier and Type Method Description PsiXmlElementWriter<Organism>AbstractXmlExperimentWriter. getHostOrganismWriter()Getter for the fieldhostOrganismWriter.PsiXmlElementWriter<Organism>AbstractXmlParticipantEvidenceWriter. getHostOrganismWriter()Getter for the fieldhostOrganismWriter.Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts with parameters of type Organism Modifier and Type Method Description voidAbstractXmlOrganismWriter. write(Organism object)write.protected abstract voidAbstractXmlOrganismWriter. writeOtherProperties(Organism object)writeOtherProperties.Method parameters in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts with type arguments of type Organism Modifier and Type Method Description voidAbstractXmlExperimentWriter. setHostOrganismWriter(PsiXmlElementWriter<Organism> hostOrganismWriter)Setter for the fieldhostOrganismWriter.voidAbstractXmlParticipantEvidenceWriter. setHostOrganismWriter(PsiXmlElementWriter<Organism> hostOrganismWriter)Setter for the fieldhostOrganismWriter. -
Uses of Organism 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 that return types with arguments of type Organism Modifier and Type Method Description PsiXmlElementWriter<Organism>AbstractXmlModelledInteractionWriter. getOrganismWriter()Getter for the fieldorganismWriter.Method parameters in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30 with type arguments of type Organism Modifier and Type Method Description voidAbstractXmlModelledInteractionWriter. setOrganismWriter(PsiXmlElementWriter<Organism> organismWriter)Setter for the fieldorganismWriter. -
Uses of Organism in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253
Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253 with parameters of type Organism Modifier and Type Method Description protected voidXmlHostOrganismWriter. writeOtherProperties(Organism object)writeOtherProperties. -
Uses of Organism in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254
Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254 with parameters of type Organism Modifier and Type Method Description protected voidXmlHostOrganismWriter. writeOtherProperties(Organism object)writeOtherProperties. -
Uses of Organism in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30
Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30 that return types with arguments of type Organism Modifier and Type Method Description PsiXmlElementWriter<Organism>AbstractXmlModelledInteractionWriter. getOrganismWriter()Getter for the fieldorganismWriter.Methods in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30 with parameters of type Organism Modifier and Type Method Description protected voidXmlHostOrganismWriter. writeOtherProperties(Organism object)writeOtherProperties.Method parameters in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30 with type arguments of type Organism Modifier and Type Method Description voidAbstractXmlModelledInteractionWriter. setOrganismWriter(PsiXmlElementWriter<Organism> organismWriter)Setter for the fieldorganismWriter. -
Uses of Organism in psidev.psi.mi.jami.xml.listener
Method parameters in psidev.psi.mi.jami.xml.listener with type arguments of type Organism Modifier and Type Method Description voidPsiXmlParserCompositeListener. onSeveralExpressedInOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralExpressedInOrganismFound.voidPsiXmlParserListener. onSeveralExpressedInOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralExpressedInOrganismFound.voidPsiXmlParserLogger. onSeveralExpressedInOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralExpressedInOrganismFound.voidPsiXmlParserCompositeListener. onSeveralHostOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralHostOrganismFound.voidPsiXmlParserListener. onSeveralHostOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralHostOrganismFound.voidPsiXmlParserLogger. onSeveralHostOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralHostOrganismFound. -
Uses of Organism in psidev.psi.mi.jami.xml.model.extension
Methods in psidev.psi.mi.jami.xml.model.extension that return Organism Modifier and Type Method Description OrganismAbstractBaseXmlInteractor. getOrganism()Getter for the fieldorganism.Methods in psidev.psi.mi.jami.xml.model.extension that return types with arguments of type Organism Modifier and Type Method Description List<Organism>ExtendedPsiXmlExperiment. getHostOrganisms()getHostOrganisms.List<Organism>ExtendedPsiXmlParticipantEvidence. getHostOrganisms()getHostOrganisms.Methods in psidev.psi.mi.jami.xml.model.extension with parameters of type Organism Modifier and Type Method Description voidAbstractBaseXmlInteractor. setJAXBOrganism(Organism organism)setJAXBOrganism.voidAbstractBaseXmlInteractor. setOrganism(Organism organism)Sets the source organism of this interactorConstructors in psidev.psi.mi.jami.xml.model.extension with parameters of type Organism Constructor Description AbstractBaseXmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for AbstractBaseXmlInteractor.AbstractBaseXmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractBaseXmlInteractor.AbstractBaseXmlInteractor(String name, String fullName, Organism organism)Constructor for AbstractBaseXmlInteractor.AbstractBaseXmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for AbstractBaseXmlInteractor.AbstractBaseXmlInteractor(String name, CvTerm type, Organism organism)Constructor for AbstractBaseXmlInteractor.AbstractBaseXmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractBaseXmlInteractor.AbstractBaseXmlInteractor(String name, Organism organism)Constructor for AbstractBaseXmlInteractor.AbstractBaseXmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for AbstractBaseXmlInteractor. -
Uses of Organism in psidev.psi.mi.jami.xml.model.extension.binary.xml30
Methods in psidev.psi.mi.jami.xml.model.extension.binary.xml30 that return Organism Modifier and Type Method Description OrganismXmlModelledBinaryInteraction. getOrganism()The original source organism for this interactor.OrganismXmlModelledBinaryInteractionWrapper. getOrganism()The original source organism for this interactor.Methods in psidev.psi.mi.jami.xml.model.extension.binary.xml30 with parameters of type Organism Modifier and Type Method Description voidXmlModelledBinaryInteraction. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlModelledBinaryInteractionWrapper. setOrganism(Organism organism)Sets the source organism of this interactor -
Uses of Organism in psidev.psi.mi.jami.xml.model.extension.datasource
Method parameters in psidev.psi.mi.jami.xml.model.extension.datasource with type arguments of type Organism Modifier and Type Method Description voidAbstractPsiXmlStream. onSeveralExpressedInOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralExpressedInOrganismFound.voidDefaultPsiXmlStreamSource. onSeveralExpressedInOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralExpressedInOrganismFound.voidAbstractPsiXmlStream. onSeveralHostOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralHostOrganismFound.voidDefaultPsiXmlStreamSource. onSeveralHostOrganismFound(Collection<Organism> organisms, FileSourceLocator locator)onSeveralHostOrganismFound. -
Uses of Organism in psidev.psi.mi.jami.xml.model.extension.xml253
Classes in psidev.psi.mi.jami.xml.model.extension.xml253 that implement Organism Modifier and Type Class Description classHostOrganismThe experiment/participant host organismclassXmlOrganismXml implementation of an organismMethods in psidev.psi.mi.jami.xml.model.extension.xml253 that return Organism Modifier and Type Method Description OrganismXmlExperimentalParticipantPool. getExpressedInOrganism()The organisms in which the participant has been expressed.OrganismXmlParticipantEvidence. getExpressedInOrganism()getExpressedInOrganism.OrganismAbstractXmlExperiment. getHostOrganism()getHostOrganism.OrganismAbstractXmlComplex. getOrganism()The original source organism for this interactor.OrganismXmlBasicInteractionComplexWrapper. getOrganism()The original source organism for this interactor.OrganismXmlInteractionEvidenceComplexWrapper. getOrganism()The original source organism for this interactor.OrganismXmlModelledInteractionComplexWrapper. getOrganism()The original source organism for this interactor.Methods in psidev.psi.mi.jami.xml.model.extension.xml253 that return types with arguments of type Organism Modifier and Type Method Description List<Organism>AbstractXmlExperiment. getHostOrganisms()getHostOrganisms.List<Organism>XmlParticipantEvidence. getHostOrganisms()getHostOrganisms.List<Organism>AbstractXmlExperiment.JAXBHostOrganismWrapper. getJAXBHostOrganisms()List<Organism>XmlParticipantEvidence.JAXBHostOrganismWrapper. getJAXBHostOrganisms()Methods in psidev.psi.mi.jami.xml.model.extension.xml253 with parameters of type Organism Modifier and Type Method Description voidXmlExperimentalParticipantPool. setExpressedInOrganism(Organism organism)Sets the expressed in organismvoidXmlParticipantEvidence. setExpressedInOrganism(Organism organism)Sets the expressed in organismvoidAbstractXmlExperiment. setHostOrganism(Organism organism)Sets the host organism of an experimentvoidAbstractXmlComplex. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlBasicInteractionComplexWrapper. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlInteractionEvidenceComplexWrapper. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlModelledInteractionComplexWrapper. setOrganism(Organism organism)Sets the source organism of this interactorConstructors in psidev.psi.mi.jami.xml.model.extension.xml253 with parameters of type Organism Constructor Description AbstractXmlComplex(String name, String fullName, CvTerm type, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, String fullName, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, CvTerm type, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for AbstractXmlExperiment.AbstractXmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, String fullName, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, CvTerm type, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.DefaultXmlComplex(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, String fullName, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, CvTerm type, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for DefaultXmlExperiment.DefaultXmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, String fullName, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, CvTerm type, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.XmlBioactiveEntity(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, CvTerm type, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, CvTerm type, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlComplex(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlComplex.XmlComplex(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlComplex(String name, String fullName, Organism organism)Constructor for XmlComplex.XmlComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlComplex(String name, CvTerm type, Organism organism)Constructor for XmlComplex.XmlComplex(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlComplex(String name, Organism organism)Constructor for XmlComplex.XmlComplex(String name, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for XmlExperiment.XmlGene(String name, String fullName, CvTerm type, Organism organism, Xref ensembl)Constructor for XmlGene.XmlGene(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId, Xref ensembl)Constructor for XmlGene.XmlGene(String name, String fullName, Organism organism)Constructor for XmlGene.XmlGene(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlGene.XmlGene(String name, CvTerm type, Organism organism, Xref ensembl)Constructor for XmlGene.XmlGene(String name, CvTerm type, Organism organism, Xref uniqueId, Xref ensembl)Constructor for XmlGene.XmlGene(String name, Organism organism)Constructor for XmlGene.XmlGene(String name, Organism organism, Xref uniqueId)Constructor for XmlGene.XmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractor(String name, String fullName, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractor(String name, CvTerm type, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractor(String name, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractorPool(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlInteractorPool(String name, String fullName, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlInteractorPool(String name, CvTerm type, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlInteractorPool(String name, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlMolecule(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlMolecule(String name, String fullName, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlMolecule(String name, CvTerm type, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlMolecule(String name, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlNucleicAcid(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, String fullName, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, CvTerm type, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlPolymer(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlPolymer(String name, String fullName, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlPolymer(String name, CvTerm type, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlPolymer(String name, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlProtein(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlProtein.XmlProtein(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlProtein.XmlProtein(String name, String fullName, Organism organism)Constructor for XmlProtein.XmlProtein(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlProtein.XmlProtein(String name, CvTerm type, Organism organism)Constructor for XmlProtein.XmlProtein(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlProtein.XmlProtein(String name, Organism organism)Constructor for XmlProtein.XmlProtein(String name, Organism organism, Xref uniqueId)Constructor for XmlProtein. -
Uses of Organism in psidev.psi.mi.jami.xml.model.extension.xml254
Classes in psidev.psi.mi.jami.xml.model.extension.xml254 that implement Organism Modifier and Type Class Description classHostOrganismThe experiment/participant host organismclassXmlOrganismXml implementation of an organismMethods in psidev.psi.mi.jami.xml.model.extension.xml254 that return Organism Modifier and Type Method Description OrganismXmlExperimentalParticipantPool. getExpressedInOrganism()The organisms in which the participant has been expressed.OrganismXmlParticipantEvidence. getExpressedInOrganism()getExpressedInOrganism.OrganismAbstractXmlExperiment. getHostOrganism()getHostOrganism.OrganismAbstractXmlComplex. getOrganism()The original source organism for this interactor.OrganismXmlBasicInteractionComplexWrapper. getOrganism()The original source organism for this interactor.OrganismXmlInteractionEvidenceComplexWrapper. getOrganism()The original source organism for this interactor.OrganismXmlModelledInteractionComplexWrapper. getOrganism()The original source organism for this interactor.Methods in psidev.psi.mi.jami.xml.model.extension.xml254 that return types with arguments of type Organism Modifier and Type Method Description List<Organism>AbstractXmlExperiment. getHostOrganisms()getHostOrganisms.List<Organism>XmlParticipantEvidence. getHostOrganisms()getHostOrganisms.List<Organism>AbstractXmlExperiment.JAXBHostOrganismWrapper. getJAXBHostOrganisms()List<Organism>XmlParticipantEvidence.JAXBHostOrganismWrapper. getJAXBHostOrganisms()Methods in psidev.psi.mi.jami.xml.model.extension.xml254 with parameters of type Organism Modifier and Type Method Description voidXmlExperimentalParticipantPool. setExpressedInOrganism(Organism organism)Sets the expressed in organismvoidXmlParticipantEvidence. setExpressedInOrganism(Organism organism)Sets the expressed in organismvoidAbstractXmlExperiment. setHostOrganism(Organism organism)Sets the host organism of an experimentvoidAbstractXmlComplex. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlBasicInteractionComplexWrapper. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlInteractionEvidenceComplexWrapper. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlModelledInteractionComplexWrapper. setOrganism(Organism organism)Sets the source organism of this interactorConstructors in psidev.psi.mi.jami.xml.model.extension.xml254 with parameters of type Organism Constructor Description AbstractXmlComplex(String name, String fullName, CvTerm type, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, String fullName, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, CvTerm type, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for AbstractXmlExperiment.AbstractXmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, String fullName, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, CvTerm type, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.DefaultXmlComplex(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, String fullName, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, CvTerm type, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for DefaultXmlExperiment.DefaultXmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, String fullName, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, CvTerm type, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.XmlBioactiveEntity(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, CvTerm type, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, CvTerm type, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlComplex(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlComplex.XmlComplex(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlComplex(String name, String fullName, Organism organism)Constructor for XmlComplex.XmlComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlComplex(String name, CvTerm type, Organism organism)Constructor for XmlComplex.XmlComplex(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlComplex(String name, Organism organism)Constructor for XmlComplex.XmlComplex(String name, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for XmlExperiment.XmlGene(String name, String fullName, CvTerm type, Organism organism, Xref ensembl)Constructor for XmlGene.XmlGene(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId, Xref ensembl)Constructor for XmlGene.XmlGene(String name, String fullName, Organism organism)Constructor for XmlGene.XmlGene(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlGene.XmlGene(String name, CvTerm type, Organism organism, Xref ensembl)Constructor for XmlGene.XmlGene(String name, CvTerm type, Organism organism, Xref uniqueId, Xref ensembl)Constructor for XmlGene.XmlGene(String name, Organism organism)Constructor for XmlGene.XmlGene(String name, Organism organism, Xref uniqueId)Constructor for XmlGene.XmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractor(String name, String fullName, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractor(String name, CvTerm type, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractor(String name, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractorPool(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlInteractorPool(String name, String fullName, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlInteractorPool(String name, CvTerm type, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlInteractorPool(String name, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlMolecule(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlMolecule(String name, String fullName, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlMolecule(String name, CvTerm type, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlMolecule(String name, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlNucleicAcid(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, String fullName, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, CvTerm type, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlPolymer(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlPolymer(String name, String fullName, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlPolymer(String name, CvTerm type, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlPolymer(String name, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlProtein(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlProtein.XmlProtein(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlProtein.XmlProtein(String name, String fullName, Organism organism)Constructor for XmlProtein.XmlProtein(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlProtein.XmlProtein(String name, CvTerm type, Organism organism)Constructor for XmlProtein.XmlProtein(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlProtein.XmlProtein(String name, Organism organism)Constructor for XmlProtein.XmlProtein(String name, Organism organism, Xref uniqueId)Constructor for XmlProtein. -
Uses of Organism in psidev.psi.mi.jami.xml.model.extension.xml300
Classes in psidev.psi.mi.jami.xml.model.extension.xml300 that implement Organism Modifier and Type Class Description classHostOrganismThe experiment/participant host organismclassXmlOrganismXml implementation of an organismMethods in psidev.psi.mi.jami.xml.model.extension.xml300 that return Organism Modifier and Type Method Description OrganismXmlExperimentalParticipantPool. getExpressedInOrganism()The organisms in which the participant has been expressed.OrganismXmlParticipantEvidence. getExpressedInOrganism()getExpressedInOrganism.OrganismAbstractXmlExperiment. getHostOrganism()getHostOrganism.OrganismAbstractXmlComplex. getOrganism()The original source organism for this interactor.OrganismXmlBasicInteractionComplexWrapper. getOrganism()The original source organism for this interactor.OrganismXmlInteractionEvidenceComplexWrapper. getOrganism()The original source organism for this interactor.OrganismXmlModelledInteraction. getOrganism()The original source organism for this interactor.OrganismXmlModelledInteractionComplexWrapper. getOrganism()The original source organism for this interactor.Methods in psidev.psi.mi.jami.xml.model.extension.xml300 that return types with arguments of type Organism Modifier and Type Method Description List<Organism>AbstractXmlExperiment. getHostOrganisms()getHostOrganisms.List<Organism>XmlParticipantEvidence. getHostOrganisms()getHostOrganisms.List<Organism>AbstractXmlExperiment.JAXBHostOrganismWrapper. getJAXBHostOrganisms()List<Organism>XmlParticipantEvidence.JAXBHostOrganismWrapper. getJAXBHostOrganisms()Methods in psidev.psi.mi.jami.xml.model.extension.xml300 with parameters of type Organism Modifier and Type Method Description voidXmlExperimentalParticipantPool. setExpressedInOrganism(Organism organism)Sets the expressed in organismvoidXmlParticipantEvidence. setExpressedInOrganism(Organism organism)Sets the expressed in organismvoidAbstractXmlExperiment. setHostOrganism(Organism organism)Sets the host organism of an experimentvoidAbstractXmlComplex. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlBasicInteractionComplexWrapper. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlInteractionEvidenceComplexWrapper. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlModelledInteraction. setOrganism(Organism organism)Sets the source organism of this interactorvoidXmlModelledInteractionComplexWrapper. setOrganism(Organism organism)Sets the source organism of this interactorConstructors in psidev.psi.mi.jami.xml.model.extension.xml300 with parameters of type Organism Constructor Description AbstractXmlComplex(String name, String fullName, CvTerm type, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, String fullName, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, CvTerm type, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, Organism organism)Constructor for AbstractXmlComplex.AbstractXmlComplex(String name, Organism organism, Xref uniqueId)Constructor for AbstractXmlComplex.AbstractXmlExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for AbstractXmlExperiment.AbstractXmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, String fullName, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, CvTerm type, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, Organism organism)Constructor for AbstractXmlInteractor.AbstractXmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for AbstractXmlInteractor.DefaultXmlComplex(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, String fullName, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, CvTerm type, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, Organism organism)Constructor for DefaultXmlComplex.DefaultXmlComplex(String name, Organism organism, Xref uniqueId)Constructor for DefaultXmlComplex.DefaultXmlExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for DefaultXmlExperiment.DefaultXmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, String fullName, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, CvTerm type, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, Organism organism)Constructor for DefaultXmlInteractor.DefaultXmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for DefaultXmlInteractor.XmlBioactiveEntity(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, CvTerm type, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, CvTerm type, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, Organism organism)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, Organism organism, String uniqueChebi)Constructor for XmlBioactiveEntity.XmlBioactiveEntity(String name, Organism organism, Xref uniqueId)Constructor for XmlBioactiveEntity.XmlComplex(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlComplex.XmlComplex(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlComplex(String name, String fullName, Organism organism)Constructor for XmlComplex.XmlComplex(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlComplex(String name, CvTerm type, Organism organism)Constructor for XmlComplex.XmlComplex(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlComplex(String name, Organism organism)Constructor for XmlComplex.XmlComplex(String name, Organism organism, Xref uniqueId)Constructor for XmlComplex.XmlExperiment(Publication publication, CvTerm interactionDetectionMethod, Organism organism)Constructor for XmlExperiment.XmlGene(String name, String fullName, CvTerm type, Organism organism, Xref ensembl)Constructor for XmlGene.XmlGene(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId, Xref ensembl)Constructor for XmlGene.XmlGene(String name, String fullName, Organism organism)Constructor for XmlGene.XmlGene(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlGene.XmlGene(String name, CvTerm type, Organism organism, Xref ensembl)Constructor for XmlGene.XmlGene(String name, CvTerm type, Organism organism, Xref uniqueId, Xref ensembl)Constructor for XmlGene.XmlGene(String name, Organism organism)Constructor for XmlGene.XmlGene(String name, Organism organism, Xref uniqueId)Constructor for XmlGene.XmlInteractor(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractor(String name, String fullName, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractor(String name, CvTerm type, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractor(String name, Organism organism)Constructor for XmlInteractor.XmlInteractor(String name, Organism organism, Xref uniqueId)Constructor for XmlInteractor.XmlInteractorPool(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlInteractorPool(String name, String fullName, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlInteractorPool(String name, CvTerm type, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlInteractorPool(String name, Organism organism)Constructor for XmlInteractorPool.XmlInteractorPool(String name, Organism organism, Xref uniqueId)Constructor for XmlInteractorPool.XmlMolecule(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlMolecule(String name, String fullName, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlMolecule(String name, CvTerm type, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlMolecule(String name, Organism organism)Constructor for XmlMolecule.XmlMolecule(String name, Organism organism, Xref uniqueId)Constructor for XmlMolecule.XmlNucleicAcid(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, String fullName, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, CvTerm type, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, Organism organism)Constructor for XmlNucleicAcid.XmlNucleicAcid(String name, Organism organism, Xref uniqueId)Constructor for XmlNucleicAcid.XmlPolymer(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlPolymer(String name, String fullName, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlPolymer(String name, CvTerm type, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlPolymer(String name, Organism organism)Constructor for XmlPolymer.XmlPolymer(String name, Organism organism, Xref uniqueId)Constructor for XmlPolymer.XmlProtein(String name, String fullName, CvTerm type, Organism organism)Constructor for XmlProtein.XmlProtein(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlProtein.XmlProtein(String name, String fullName, Organism organism)Constructor for XmlProtein.XmlProtein(String name, String fullName, Organism organism, Xref uniqueId)Constructor for XmlProtein.XmlProtein(String name, CvTerm type, Organism organism)Constructor for XmlProtein.XmlProtein(String name, CvTerm type, Organism organism, Xref uniqueId)Constructor for XmlProtein.XmlProtein(String name, Organism organism)Constructor for XmlProtein.XmlProtein(String name, Organism organism, Xref uniqueId)Constructor for XmlProtein. -
Uses of Organism in psidev.psi.mi.jami.xml.model.reference.xml253
Methods in psidev.psi.mi.jami.xml.model.reference.xml253 that return Organism Modifier and Type Method Description OrganismAbstractExperimentRef. getHostOrganism()getHostOrganism.OrganismAbstractInteractorRef. getOrganism()getOrganism.Methods in psidev.psi.mi.jami.xml.model.reference.xml253 that return types with arguments of type Organism Modifier and Type Method Description List<Organism>AbstractExperimentRef. getHostOrganisms()getHostOrganisms.Methods in psidev.psi.mi.jami.xml.model.reference.xml253 with parameters of type Organism Modifier and Type Method Description voidAbstractExperimentRef. setHostOrganism(Organism organism)Sets the host organism of an experimentvoidAbstractInteractorRef. setOrganism(Organism organism)Sets the source organism of this interactor -
Uses of Organism in psidev.psi.mi.jami.xml.model.reference.xml254
Methods in psidev.psi.mi.jami.xml.model.reference.xml254 that return Organism Modifier and Type Method Description OrganismAbstractExperimentRef. getHostOrganism()getHostOrganism.OrganismAbstractInteractorRef. getOrganism()getOrganism.Methods in psidev.psi.mi.jami.xml.model.reference.xml254 that return types with arguments of type Organism Modifier and Type Method Description List<Organism>AbstractExperimentRef. getHostOrganisms()getHostOrganisms.Methods in psidev.psi.mi.jami.xml.model.reference.xml254 with parameters of type Organism Modifier and Type Method Description voidAbstractExperimentRef. setHostOrganism(Organism organism)Sets the host organism of an experimentvoidAbstractInteractorRef. setOrganism(Organism organism)Sets the source organism of this interactor -
Uses of Organism in psidev.psi.mi.jami.xml.model.reference.xml300
Methods in psidev.psi.mi.jami.xml.model.reference.xml300 that return Organism Modifier and Type Method Description OrganismAbstractExperimentRef. getHostOrganism()getHostOrganism.OrganismAbstractInteractorRef. getOrganism()getOrganism.Methods in psidev.psi.mi.jami.xml.model.reference.xml300 that return types with arguments of type Organism Modifier and Type Method Description List<Organism>AbstractExperimentRef. getHostOrganisms()getHostOrganisms.Methods in psidev.psi.mi.jami.xml.model.reference.xml300 with parameters of type Organism Modifier and Type Method Description voidAbstractExperimentRef. setHostOrganism(Organism organism)Sets the host organism of an experimentvoidAbstractInteractorRef. setOrganism(Organism organism)Sets the source organism of this interactor
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