All Classes
AbstractCharLabelsReader
AbstractCharLabelsReader
AbstractEventReader
AbstractEventReader
AbstractEventWriter
AbstractEventWriter
AbstractEventWriter.NoEditUniqueLabelHandler
AbstractEventWriter.NoEditUniqueLabelHandler
AbstractEventWriter.UniqueLabelHandler
AbstractEventWriter.UniqueLabelHandler
AbstractIDLinkSetElementReader
AbstractIDLinkSetElementReader
AbstractKeyValueCommandReader
AbstractKeyValueCommandReader
AbstractMetaXMLReader
AbstractMetaXMLReader
AbstractMetaXMLWriter
AbstractMetaXMLWriter
AbstractNeXMLDataReceiver
AbstractNeXMLDataReceiver
AbstractNeXMLDataReceiverMixin
AbstractNeXMLDataReceiverMixin
AbstractNeXMLElementReader
AbstractNeXMLElementReader
AbstractNeXMLElementReader.LabeledIDEventInformation
AbstractNeXMLElementReader.LabeledIDEventInformation
AbstractNeXMLElementReader.OTUorOTUsEventInformation
AbstractNeXMLElementReader.OTUorOTUsEventInformation
AbstractNexusBlockHandler
AbstractNexusBlockHandler
AbstractNexusCommandEventReader
AbstractNexusCommandEventReader
AbstractNexusEventReceiver
AbstractNexusEventReceiver
AbstractNexusSetReader
AbstractNexusSetReader
AbstractNexusSetsEventReceiver
AbstractNexusSetsEventReceiver
AbstractNexusSetWriter
AbstractNexusSetWriter
AbstractObjectTranslator
AbstractObjectTranslator
AbstractPhylipEventReader
AbstractPhylipEventReader
AbstractPhylipFactory
AbstractPhylipFactory
AbstractSequenceContentReceiver
AbstractSequenceContentReceiver
AbstractSetElementReader
AbstractSetElementReader
AbstractSingleMatrixEventWriter
AbstractSingleMatrixEventWriter
AbstractSingleReaderWriterFactory
AbstractSingleReaderWriterFactory
AbstractStartStringSingleFactory
AbstractStartStringSingleFactory
AbstractTextEventReader
AbstractTextEventReader
AbstractTextEventWriter
AbstractTextEventWriter
AbstractXMLDataReceiver
AbstractXMLDataReceiver
AbstractXMLElementReader
AbstractXMLElementReader
AbstractXMLEventReader
AbstractXMLEventReader
AbstractXMLEventWriter
AbstractXMLEventWriter
AbstractXMLFactory
AbstractXMLFactory
AbstractXMLObjectTranslator
AbstractXMLObjectTranslator
AnnotatedDataAdapter
AnnotatedDataAdapter
AttributeInfo
AttributeInfo
Base64BinaryTranslator
Base64BinaryTranslator
BasicEventReceiver
BasicEventReceiver
BasicTextCommentEventReceiver
BasicTextCommentEventReceiver
BigDecimalTranslator
BigDecimalTranslator
BigIntegerTranslator
BigIntegerTranslator
BlockTitleToIDMap
BlockTitleToIDMap
BooleanTranslator
BooleanTranslator
BufferedEventInfo
BufferedEventInfo
ByteTranslator
ByteTranslator
CharacterDefinitionEvent
CharacterDefinitionEvent
CharactersDataUnalignedBlockHandler
CharactersDataUnalignedBlockHandler
CharacterSetEventReceiver
CharacterSetEventReceiver
CharacterSetIntervalEvent
CharacterSetIntervalEvent
CharLabelsReader
CharLabelsReader
CharSetReader
CharSetReader
CharStateLabelsReader
CharStateLabelsReader
CommentElementReader
CommentElementReader
CommentEvent
CommentEvent
ConcreteJPhyloIOEvent
ConcreteJPhyloIOEvent
ContinuedEvent
ContinuedEvent
DateTimeTranslator
DateTimeTranslator
DateTranslator
DateTranslator
DefaultCommandReader
DefaultCommandReader
DefaultFormatInfo
DefaultFormatInfo
DefaultNewickReaderNodeLabelProcessor
DefaultNewickReaderNodeLabelProcessor
DefaultNewickWriterNodeLabelProcessor
DefaultNewickWriterNodeLabelProcessor
DimensionsReader
DimensionsReader
DocumentDataAdapter
DocumentDataAdapter
DoubleTranslator
DoubleTranslator
EdgeEvent
EdgeEvent
ElementDataAdapter
ElementDataAdapter
EmptyAnnotatedDataAdapter
EmptyAnnotatedDataAdapter
EmptyDocumentDataAdapter
EmptyDocumentDataAdapter
EmptyObjectListDataAdapter
EmptyObjectListDataAdapter
EventContentType
EventContentType
EventForwarder
EventForwarder
EventTopologyType
EventTopologyType
EventType
EventType
FASTAConstants
FASTAConstants
FASTAEventReader
FASTAEventReader
FASTAEventWriter
FASTAEventWriter
FASTAFactory
FASTAFactory
FloatTranslator
FloatTranslator
FormatReader
FormatReader
HexBinaryTranslator
HexBinaryTranslator
HotCommentDataReader
HotCommentDataReader
IDBasedSetsReader
IDBasedSetsReader
IDToNameManager
IDToNameManager
IllegalArgumentExceptionSimpleValueTranslator
IllegalArgumentExceptionSimpleValueTranslator
IllegalEventException
IllegalEventException
InconsistentAdapterDataException
InconsistentAdapterDataException
IntegerTranslator
IntegerTranslator
InvalidObjectSourceDataException
InvalidObjectSourceDataException
JPhyloIO
JPhyloIO
JPhyloIOContentExtensionFileFilter
JPhyloIOContentExtensionFileFilter
JPhyloIOEvent
JPhyloIOEvent
JPhyloIOEventListener
JPhyloIOEventListener
JPhyloIOEventReader
JPhyloIOEventReader
JPhyloIOEventReceiver
JPhyloIOEventReceiver
JPhyloIOEventWriter
JPhyloIOEventWriter
JPhyloIOFormatIDs
JPhyloIOFormatIDs
JPhyloIOFormatInfo
JPhyloIOFormatInfo
JPhyloIOFormatSpecificObject
JPhyloIOFormatSpecificObject
JPhyloIOReaderException
JPhyloIOReaderException
JPhyloIOReaderWriterFactory
JPhyloIOReaderWriterFactory
JPhyloIOReadingUtils
JPhyloIOReadingUtils
JPhyloIOWriterException
JPhyloIOWriterException
JPhyloIOWritingUtils
JPhyloIOWritingUtils
JPhyloIOXMLEventReader
JPhyloIOXMLEventReader
JPhyloIOXMLEventWriter
JPhyloIOXMLEventWriter
KeyValueInformation
KeyValueInformation
LabeledEvent
LabeledEvent
LabeledIDEvent
LabeledIDEvent
LabelEditingReporter
LabelEditingReporter
LabelEditingReporter.LabelStatus
LabelEditingReporter.LabelStatus
LinkedIDEvent
LinkedIDEvent
LinkedLabeledIDEvent
LinkedLabeledIDEvent
LinkReader
LinkReader
ListBasedDocumentDataAdapter
ListBasedDocumentDataAdapter
ListTranslator
ListTranslator
LiteralContentSequenceType
LiteralContentSequenceType
LiteralMetadataContentEvent
LiteralMetadataContentEvent
LiteralMetadataEvent
LiteralMetadataEvent
LongTranslator
LongTranslator
MatrixDataAdapter
MatrixDataAdapter
MatrixReader
MatrixReader
MEGAConstants
MEGAConstants
MEGAEventReader
MEGAEventReader
MEGAFactory
MEGAFactory
MetadataModeling
MetadataModeling
MetadataTopologyType
MetadataTopologyType
MetaXMLEventReader
MetaXMLEventReader
MetaXMLEventWriter
MetaXMLEventWriter
MetaXMLStreamReader
MetaXMLStreamReader
MetaXMLStreamWriter
MetaXMLStreamWriter
NewickConstants
NewickConstants
NewickEventReader
NewickEventReader
NewickEventWriter
NewickEventWriter
NewickFactory
NewickFactory
NewickNodeEdgeEventReceiver
NewickNodeEdgeEventReceiver
NewickReaderNodeLabelProcessor
NewickReaderNodeLabelProcessor
NewickScanner
NewickScanner
NewickStringReader
NewickStringReader
NewickStringWriter
NewickStringWriter
NewickToken
NewickToken
NewickTokenType
NewickTokenType
NewickUtils
NewickUtils
NewickUtils.ReadElement
NewickUtils.ReadElement
NewickWriterNodeLabelProcessor
NewickWriterNodeLabelProcessor
NeXMLAttributeMetadataReceiver
NeXMLAttributeMetadataReceiver
NeXMLCharacterSetEventReceiver
NeXMLCharacterSetEventReceiver
NeXMLCollectCharSetDataReceiver
NeXMLCollectCharSetDataReceiver
NeXMLCollectNamespaceReceiver
NeXMLCollectNamespaceReceiver
NeXMLCollectSequenceDataReceiver
NeXMLCollectSequenceDataReceiver
NeXMLCollectSetMetadataReceiver
NeXMLCollectSetMetadataReceiver
NeXMLCollectTokenSetDefinitionDataReceiver
NeXMLCollectTokenSetDefinitionDataReceiver
NeXMLConstants
NeXMLConstants
NeXMLEventReader
NeXMLEventReader
NeXMLEventWriter
NeXMLEventWriter
NeXMLFactory
NeXMLFactory
NeXMLHandleSequenceDataReceiver
NeXMLHandleSequenceDataReceiver
NeXMLIgnoreCertainMetadataReceiver
NeXMLIgnoreCertainMetadataReceiver
NeXMLMetaDataReceiver
NeXMLMetaDataReceiver
NeXMLMetaEndElementReader
NeXMLMetaEndElementReader
NeXMLMetaStartElementReader
NeXMLMetaStartElementReader
NeXMLMolecularDataTokenDefinitionReceiver
NeXMLMolecularDataTokenDefinitionReceiver
NeXMLOnlyWriteMetaDataReceiver
NeXMLOnlyWriteMetaDataReceiver
NeXMLPredicateMetaReceiver
NeXMLPredicateMetaReceiver
NeXMLReaderStreamDataProvider
NeXMLReaderStreamDataProvider
NeXMLReaderTokenSetInformation
NeXMLReaderTokenSetInformation
NeXMLSequenceTokensReceiver
NeXMLSequenceTokensReceiver
NeXMLSetEndElementReader
NeXMLSetEndElementReader
NeXMLSingleTokenDefinitionInformation
NeXMLSingleTokenDefinitionInformation
NeXMLStartDocumentElementReader
NeXMLStartDocumentElementReader
NeXMLTokenSetEventReceiver
NeXMLTokenSetEventReceiver
NeXMLWriterAlignmentInformation
NeXMLWriterAlignmentInformation
NeXMLWriterStreamDataProvider
NeXMLWriterStreamDataProvider
NeXMLWriterTokenSetInformation
NeXMLWriterTokenSetInformation
NexusBlockHandler
NexusBlockHandler
NexusBlockHandlerMap
NexusBlockHandlerMap
NexusCommandEventReader
NexusCommandEventReader
NexusCommandReaderFactory
NexusCommandReaderFactory
NexusConstants
NexusConstants
NexusEventReader
NexusEventReader
NexusEventWriter
NexusEventWriter
NexusFactory
NexusFactory
NexusMatrixWriteResult
NexusMatrixWriteResult
NexusNewickReaderNodeLabelProcessor
NexusNewickReaderNodeLabelProcessor
NexusNewickWriterNodeLabelProcessor
NexusNewickWriterNodeLabelProcessor
NexusReaderStreamDataProvider
NexusReaderStreamDataProvider
NexusTranslationTable
NexusTranslationTable
NexusWriterStreamDataProvider
NexusWriterStreamDataProvider
NHXUtils
NHXUtils
NoCharDefsNoSetsMatrixDataAdapter
NoCharDefsNoSetsMatrixDataAdapter
NodeEdgeInfo
NodeEdgeInfo
NodeEvent
NodeEvent
NoSetsTreeNetworkDataAdapter
NoSetsTreeNetworkDataAdapter
NoSetsTreeNetworkGroupDataAdapter
NoSetsTreeNetworkGroupDataAdapter
NumericValueTranslator
NumericValueTranslator
ObjectListDataAdapter
ObjectListDataAdapter
ObjectTranslator
ObjectTranslator
ObjectTranslatorFactory
ObjectTranslatorFactory
OTUListDataAdapter
OTUListDataAdapter
ParentEventInformation
ParentEventInformation
PartEndEvent
PartEndEvent
PDEConstants
PDEConstants
PDEEventReader
PDEEventReader
PDEFactory
PDEFactory
PDEMetaColumnDefintion
PDEMetaColumnDefintion
PDEMetaColumnType
PDEMetaColumnType
PDEReaderStreamDataProvider
PDEReaderStreamDataProvider
PhylipConstants
PhylipConstants
PhylipEventReader
PhylipEventReader
PhylipEventWriter
PhylipEventWriter
PhylipFactory
PhylipFactory
PhyloXMLCharactersElementReader
PhyloXMLCharactersElementReader
PhyloXMLCollectMetadataDataReceiver
PhyloXMLCollectMetadataDataReceiver
PhyloXMLColorTranslator
PhyloXMLColorTranslator
PhyloXMLConstants
PhyloXMLConstants
PhyloXMLEventReader
PhyloXMLEventReader
PhyloXMLEventWriter
PhyloXMLEventWriter
PhyloXMLFactory
PhyloXMLFactory
PhyloXMLMetaDataReceiver
PhyloXMLMetaDataReceiver
PhyloXMLMetadataTreatment
PhyloXMLMetadataTreatment
PhyloXMLMetaEventInfo
PhyloXMLMetaEventInfo
PhyloXMLOnlyCustomXMLDataReceiver
PhyloXMLOnlyCustomXMLDataReceiver
PhyloXMLPredicateInfo
PhyloXMLPredicateInfo
PhyloXMLPredicateTreatment
PhyloXMLPredicateTreatment
PhyloXMLPrivateConstants
PhyloXMLPrivateConstants
PhyloXMLPropertyMetadataReceiver
PhyloXMLPropertyMetadataReceiver
PhyloXMLReaderStreamDataProvider
PhyloXMLReaderStreamDataProvider
PhyloXMLSpecificPredicatesDataReceiver
PhyloXMLSpecificPredicatesDataReceiver
PhyloXMLStartDocumentElementReader
PhyloXMLStartDocumentElementReader
PhyloXMLWriterStreamDataProvider
PhyloXMLWriterStreamDataProvider
PropertyOwner
PropertyOwner
QNameTranslator
QNameTranslator
ReaderStreamDataProvider
ReaderStreamDataProvider
ReadWriteConstants
ReadWriteConstants
ReadWriteParameterMap
ReadWriteParameterMap
ReadWriteParameterNames
ReadWriteParameterNames
ReferenceOnlySetReceiver
ReferenceOnlySetReceiver
ResourceMetadataEvent
ResourceMetadataEvent
SequenceTokensEvent
SequenceTokensEvent
SequenceTokensEventManager
SequenceTokensEventManager
SequentialPhylipEventReader
SequentialPhylipEventReader
SequentialPhylipFactory
SequentialPhylipFactory
SetElementEvent
SetElementEvent
ShortTranslator
ShortTranslator
SimpleValueTranslator
SimpleValueTranslator
SingleReaderWriterFactory
SingleReaderWriterFactory
SingleSequenceTokenEvent
SingleSequenceTokenEvent
SingleTokenDefinitionEvent
SingleTokenDefinitionEvent
StartDocumentElementReader
StartDocumentElementReader
StoreAnnotatedDataAdapter
StoreAnnotatedDataAdapter
StoreDocumentDataAdapter
StoreDocumentDataAdapter
StoreMatrixDataAdapter
StoreMatrixDataAdapter
StoreObjectData
StoreObjectData
StoreObjectListDataAdapter
StoreObjectListDataAdapter
StoreOTUListDataAdapter
StoreOTUListDataAdapter
StoreTreeNetworkDataAdapter
StoreTreeNetworkDataAdapter
StoreTreeNetworkGroupDataAdapter
StoreTreeNetworkGroupDataAdapter
StringTranslator
StringTranslator
TaxaBlockHandler
TaxaBlockHandler
TaxLabelsReader
TaxLabelsReader
TaxSetReader
TaxSetReader
TextReaderStreamDataProvider
TextReaderStreamDataProvider
TextSequenceContentReceiver
TextSequenceContentReceiver
TextWriterStreamDataProvider
TextWriterStreamDataProvider
TimeTranslator
TimeTranslator
TitleReader
TitleReader
TokenDefinitionLabelHandling
TokenDefinitionLabelHandling
TokenSetDefinitionEvent
TokenSetDefinitionEvent
TokenSetEventReceiver
TokenSetEventReceiver
TokenTranslationStrategy
TokenTranslationStrategy
TopoplogicalNodeInfo
TopoplogicalNodeInfo
TranslateReader
TranslateReader
TreeNetworkDataAdapter
TreeNetworkDataAdapter
TreeNetworkGroupDataAdapter
TreeNetworkGroupDataAdapter
TreeReader
TreeReader
TreesBlockHandler
TreesBlockHandler
TreeSetReader
TreeSetReader
TreeTopologyExtractor
TreeTopologyExtractor
UndefinedOTUListDataAdapter
UndefinedOTUListDataAdapter
UnknownCommandEvent
UnknownCommandEvent
UnsupportedFormatFeatureException
UnsupportedFormatFeatureException
URIOrStringIdentifier
URIOrStringIdentifier
URITranslator
URITranslator
WriterStreamDataProvider
WriterStreamDataProvider
XMLElementReader
XMLElementReader
XMLElementReaderKey
XMLElementReaderKey
XMLEndElementReader
XMLEndElementReader
XMLNoCharactersAllowedElementReader
XMLNoCharactersAllowedElementReader
XMLReaderStreamDataProvider
XMLReaderStreamDataProvider
XMLReadWriteUtils
XMLReadWriteUtils
XMLStartElementReader
XMLStartElementReader
XMLWriterStreamDataProvider
XMLWriterStreamDataProvider
XTGConstants
XTGConstants
XTGEventReader
XTGEventReader
XTGFactory
XTGFactory
XTGFormattedTextElementReader
XTGFormattedTextElementReader