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 class
final class
final class
Methods 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 TypeMethodDescriptionboolean
RenderableDomainArchitecture.isEqual
(PhylogenyData data) boolean
RenderableMsaSequence.isEqual
(PhylogenyData data) boolean
RenderableVector.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
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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 class
class
class
class
class
class
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class
class
class
final class
class
final class
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class
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Methods 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 PhylogenyData
NodeVisualData.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 TypeMethodDescriptionboolean
Accession.isEqual
(PhylogenyData data) boolean
Annotation.isEqual
(PhylogenyData data) boolean
BinaryCharacters.isEqual
(PhylogenyData data) boolean
BranchColor.isEqual
(PhylogenyData data) boolean
BranchData.isEqual
(PhylogenyData data) boolean
BranchWidth.isEqual
(PhylogenyData data) boolean
Confidence.isEqual
(PhylogenyData confidence) boolean
Date.isEqual
(PhylogenyData data) boolean
Distribution.isEqual
(PhylogenyData data) boolean
DomainArchitecture.isEqual
(PhylogenyData domain_architecture) Returns true if the names and the order of the domains match (domain and linker lengths are ignored).boolean
Event.isEqual
(PhylogenyData event) boolean
Identifier.isEqual
(PhylogenyData data) boolean
NodeData.isEqual
(PhylogenyData data) final boolean
NodeVisualData.isEqual
(PhylogenyData data) boolean
PhylogenyData.isEqual
(PhylogenyData data) Compares this PhylogenyData to PhylogenyData data.boolean
Point.isEqual
(PhylogenyData point) boolean
Polygon.isEqual
(PhylogenyData data) boolean
PropertiesMap.isEqual
(PhylogenyData data) boolean
Property.isEqual
(PhylogenyData data) boolean
ProteinDomain.isEqual
(PhylogenyData protein_domain) boolean
Reference.isEqual
(PhylogenyData data) boolean
Sequence.isEqual
(PhylogenyData data) boolean
SequenceRelation.isEqual
(PhylogenyData data) boolean
Taxonomy.isEqual
(PhylogenyData data) If this and taxonomy 'data' has an identifier, comparison will be based on that.boolean
Uri.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