Uses of Interface
org.forester.phylogeny.data.PhylogenyData
Packages that use PhylogenyData
Package
Description
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Uses of PhylogenyData in org.forester.archaeopteryx.phylogeny.data
Subinterfaces of PhylogenyData in org.forester.archaeopteryx.phylogeny.dataClasses in org.forester.archaeopteryx.phylogeny.data that implement PhylogenyDataModifier and TypeClassDescriptionfinal classfinal classfinal classMethods in org.forester.archaeopteryx.phylogeny.data that return PhylogenyDataModifier and TypeMethodDescriptionRenderableDomainArchitecture.copy()RenderableMsaSequence.copy()RenderableVector.copy()Methods in org.forester.archaeopteryx.phylogeny.data with parameters of type PhylogenyDataModifier and TypeMethodDescriptionbooleanRenderableDomainArchitecture.isEqual(PhylogenyData data) booleanRenderableMsaSequence.isEqual(PhylogenyData data) booleanRenderableVector.isEqual(PhylogenyData data) -
Uses of PhylogenyData in org.forester.go
Subinterfaces of PhylogenyData in org.forester.goClasses in org.forester.go that implement PhylogenyDataMethods in org.forester.go that return PhylogenyDataMethods in org.forester.go with parameters of type PhylogenyData -
Uses of PhylogenyData in org.forester.io.parsers.phyloxml.data
Methods in org.forester.io.parsers.phyloxml.data that return PhylogenyDataModifier and TypeMethodDescriptionAccessionParser.parse(XmlElement element) AnnotationParser.parse(XmlElement element) BinaryCharactersParser.parse(XmlElement element) BranchWidthParser.parse(XmlElement element) ColorParser.parse(XmlElement element) ConfidenceParser.parse(XmlElement element) DateParser.parse(XmlElement element) DistributionParser.parse(XmlElement element) EventParser.parse(XmlElement element) IdentifierParser.parse(XmlElement element) PhylogenyDataPhyloXmlParser.parse(XmlElement element) PointParser.parse(XmlElement element) PolygonParser.parse(XmlElement element) PropertyParser.parse(XmlElement element) ReferenceParser.parse(XmlElement element) UriParser.parse(XmlElement element) -
Uses of PhylogenyData in org.forester.phylogeny
Methods in org.forester.phylogeny that return PhylogenyData -
Uses of PhylogenyData in org.forester.phylogeny.data
Classes in org.forester.phylogeny.data that implement PhylogenyDataModifier and TypeClassDescriptionfinal classclassclassclassclassclassclassclassclassclassclassfinal classclassfinal classclassclassclassclassclassclassclassclassclassclassMethods in org.forester.phylogeny.data that return PhylogenyDataModifier and TypeMethodDescriptionAccession.copy()Annotation.copy()BinaryCharacters.copy()BranchColor.copy()BranchData.copy()BranchWidth.copy()Confidence.copy()Date.copy()Distribution.copy()DomainArchitecture.copy()Event.copy()Identifier.copy()NodeData.copy()final PhylogenyDataNodeVisualData.copy()PhylogenyData.copy()Creates a new PhylogenyData object with identical values as this PhylogenyData.Point.copy()Polygon.copy()PropertiesMap.copy()Property.copy()ProteinDomain.copy()Reference.copy()Sequence.copy()Not a deep copy.SequenceRelation.copy()Taxonomy.copy()Uri.copy()Methods in org.forester.phylogeny.data that return types with arguments of type PhylogenyDataModifier and TypeMethodDescriptionstatic ArrayList<PhylogenyData>PhylogenyDataUtil.copy(ArrayList<PhylogenyData> list) Creates a deep copy of ArrayList of PhylogenyData objects.Methods in org.forester.phylogeny.data with parameters of type PhylogenyDataModifier and TypeMethodDescriptionbooleanAccession.isEqual(PhylogenyData data) booleanAnnotation.isEqual(PhylogenyData data) booleanBinaryCharacters.isEqual(PhylogenyData data) booleanBranchColor.isEqual(PhylogenyData data) booleanBranchData.isEqual(PhylogenyData data) booleanBranchWidth.isEqual(PhylogenyData data) booleanConfidence.isEqual(PhylogenyData confidence) booleanDate.isEqual(PhylogenyData data) booleanDistribution.isEqual(PhylogenyData data) booleanDomainArchitecture.isEqual(PhylogenyData domain_architecture) Returns true if the names and the order of the domains match (domain and linker lengths are ignored).booleanEvent.isEqual(PhylogenyData event) booleanIdentifier.isEqual(PhylogenyData data) booleanNodeData.isEqual(PhylogenyData data) final booleanNodeVisualData.isEqual(PhylogenyData data) booleanPhylogenyData.isEqual(PhylogenyData data) Compares this PhylogenyData to PhylogenyData data.booleanPoint.isEqual(PhylogenyData point) booleanPolygon.isEqual(PhylogenyData data) booleanPropertiesMap.isEqual(PhylogenyData data) booleanProperty.isEqual(PhylogenyData data) booleanProteinDomain.isEqual(PhylogenyData protein_domain) booleanReference.isEqual(PhylogenyData data) booleanSequence.isEqual(PhylogenyData data) booleanSequenceRelation.isEqual(PhylogenyData data) booleanTaxonomy.isEqual(PhylogenyData data) If this and taxonomy 'data' has an identifier, comparison will be based on that.booleanUri.isEqual(PhylogenyData data) Method parameters in org.forester.phylogeny.data with type arguments of type PhylogenyDataModifier and TypeMethodDescriptionstatic ArrayList<PhylogenyData>PhylogenyDataUtil.copy(ArrayList<PhylogenyData> list) Creates a deep copy of ArrayList of PhylogenyData objects.Constructor parameters in org.forester.phylogeny.data with type arguments of type PhylogenyData