All Classes
AbstractAlignmentModel
AbstractAlignmentModelDecorator
AbstractAlignmentModelFactory
AbstractAlignmentSubAreaComponent
AbstractBasicAlignmentModelView
AbstractBioPolymerTokenPainter
AbstractContinuousSet
AbstractDataModelEventReader
AbstractIndexTranslator
AbstractListAlignmentModel
AbstractMapBasedAlignmentModel
AbstractSequenceIDIterator
AbstractSingleSequenceDataAdapter
AbstractSWTAlignmentArea
AbstractTokenPainter
AbstractTokenReplacementAlignmentModelDecorator
AbstractTokenSet
AbstractUndecoratedAlignmentModel
AbstractUnmodifyableAlignmentModel
AlignmentActionProvider
AlignmentArea
AlignmentAreaList
AlignmentContentArea
AlignmentCursor
AlignmentDataReader
AlignmentLabelArea
AlignmentLabelSubArea
AlignmentLabelSubAreaIterator
AlignmentModel
AlignmentModelChangeEvent
AlignmentModelChangeListener
AlignmentModelDataAdapter
AlignmentModelEventReader
AlignmentModelException
AlignmentModelFactory
AlignmentModelUtils
AlignmentModelView
AlignmentModelWriteType
AlignmentPaintEvent
AlignmentSourceNotWritableException
AlignmentSubArea
AlignmentSubAreaInfo
AlignmentSubAreaIterator
AminoAcidTokenPainter
ArrayListAlignmentModel
BasicAlignmentModelView
BioJava3AminoAcidAligmentModelFactory
BioJava3NucleotideAlignmentModelFactory
BioJava3SequenceAdapter
BioJava3SequenceAlignmentModel
BioJava3TokenSet
BioJavaPherogramProvider
BioPolymerCharAlignmentModelFactory
CharacterTokenSet
CharSequenceAdapter
CharSequenceAlignmentModel
CharSequenceTokenScanner
CharSet
CharSetArea
CharSetChangeEvent
CharSetColorChangeEvent
CharSetColumnChangeEvent
CharSetDataAdapter
CharSetDataModel
CharSetDataModelChangeEvent
CharSetDataModelListener
CharSetEventReader
CharSetNameArea
CharSetRenamedEvent
ConcatenatedAlignmentModel
ConsensusSequenceArea
ContinuousToken
CursorSelectionInputListener
DataArea
DataAreaChangeEvent
DataAreaChangeEventList
DataAreaList
DataAreaListType
DataAreaLocation
DataAreaSequenceChangeListener
DataAreasModel
DataAreasModelListener
DataAreaVisibleIterator
DataModel
DataModelEventReader
DataModelFactory
DataModelKey
DefaultLabelSubArea
DefaultTokenSet
DelegatedAlignmentModelView
DirectPaintingSWTAlignmentArea
DirectPaintingSWTAlignmentContentScroller
DNAAlignmentModelDecorator
DoubleAlignmentModelFactory
DoubleTokenSet
EditSettings
EditSettingsChangeEvent
EditSettingsListener
FloatAlignmentModelFactory
FloatTokenSet
GapPattern
GUITools
HorizontalScrollingSynchronizer
IndexRelation
InputEventForwarder
InvalidTokenException
InvalidTokenRepresentationException
InvalidUnderlyingTokenException
IOTools
LibrAlignSwingAlignmentEdit
MultipleAlignmentsContainer
MultipleAlignmentsModelEventForwarder
NewAlignmentModelParameterMap
NoArgDataModelFactory
NucleotideTokenPainter
OneDimensionalSelection
PackedAlignmentModel
PaintSettings
PaintSettingsEvent
PaintSettingsListener
PherogramAlignmentRelation
PherogramArea
PherogramAreaModel
PherogramComponent
PherogramComponentModel
PherogramComponentModelListener
PherogramCutPositionChangeEvent
PherogramDistortion
PherogramFirstSeqPosChangeEvent
PherogramFormats
PherogramFormats.QualityOutputType
PherogramHeadingView
PherogramModelChangeEvent
PherogramPainter
PherogramProvider
PherogramProviderChangeEvent
PherogramTraceCurveView
PherogramUtils
PherogramView
RandomAccessIndexTranslator
RandomAccessIndexTranslator.IndexTranslations
ReverseComplementPherogramProvider
RNAAlignmentModelDecorator
ScaledPherogramDistortion
ScrollContainerSwingAlignmentArea
ScrollContainerSwingAlignmentContentArea
ScrollContainerSwingAlignmentLabelArea
ScrollContainerSWTAlignmentArea
ScrollContainerSWTAlignmentContentArea
SelectionDimension
SelectionListener
SelectionModel
SelectionSynchronizer
SelectionType
SequenceAccess
SequenceAccessAlignmentModel
SequenceArea
SequenceAreaMap
SequenceChangeEvent
SequenceDataAdapter
SequenceIDManager
SequenceIndexArea
SequenceIndexModel
SequenceLabelArea
SequenceNotFoundException
SequenceOrder
SequenceOrderType
SequenceRenamedEvent
ShiftChange
SingleBioJava3SequenceAdapter
SingleCharSequenceAdapter
SingleColorTokenPainter
SingleSequenceDataAdapter
StringAdapter
StringAlignmentModelFactory
SwingAddSequenceEdit
SwingAlignmentRowsArea
SwingConcreteAddSequenceEdit
SwingEditFactory
SwingInsertRemoveTokensEdit
SwingInsertTokensEdit
SwingMultipleAlignmentsContainer
SwingPhergramView
SwingRemoveSequenceEdit
SwingRemoveTokensEdit
SwingRenameSequenceEdit
SwingSequenceEdit
SwingSetTokensEdit
SwingTokenEdit
SwingUndoAlignmentModel
SWTAlignmentLabelArea
SWTAlignmentRowsArea
SWTMultipleAlignmentsContainer
SWTPhergramView
SWTScrollableResizeListener
TextLabelArea
TokenChangeEvent
TokenDefinition
TokenPainter
TokenPainterList
TokenPainterMap
TokenPainterReplacedEvent
TokenSet
TokenSetAdapter
TokenSetTools
ToolkitIndependentPhergramView
ToolkitSpecificAlignmentArea
ToolkitSpecificAlignmentContentArea
ToolkitSpecificAlignmentLabelArea
ToolkitSpecificAlignmentRowsArea
ToolkitSpecificMultipleAlignmentsContainer
UnscaledPherogramDistortion
WorkingMode
ZoomChangeEvent