Package | Description |
---|---|
info.bioinfweb.libralign.alignmentarea |
Contains basic implementations for displaying an alignment area.
|
info.bioinfweb.libralign.dataarea |
Contains
DataArea from which all data areas used in LibrAlign
must be inherited as well as related classes and a set of general data area implementations provided with
LibrAlign which are located in the subpackage implementations . |
info.bioinfweb.libralign.dataarea.implementations |
Contains classes that implement a concrete data area.
|
info.bioinfweb.libralign.dataarea.implementations.charset |
Contains data area related classes to display character sets of an alignment.
|
info.bioinfweb.libralign.dataarea.implementations.pherogram |
Contains
PherogramArea and other classes used in its
implementation. |
info.bioinfweb.libralign.dataarea.implementations.sequenceindex | |
info.bioinfweb.libralign.model |
Contains the
AlignmentModel interface which
is the bridge between LibrAlign and any source of alignment data that is displayed with it as well as
related classes and a set of implementations of this interface provided with LibrAlign. |
info.bioinfweb.libralign.model.implementations |
Contains common implementations of
AlignmentModel
which are part of LibrAlign. |
info.bioinfweb.libralign.model.implementations.decorate | |
info.bioinfweb.libralign.multiplealignments |
Contains classes used in the implementation of
MultipleAlignmentsContainer
which allow to combine several AlignmentArea s. |
Modifier and Type | Class and Description |
---|---|
class |
AlignmentArea
Instances of this class act as GUI components that display a multiple sequence alignment including attached data areas.
|
Modifier and Type | Class and Description |
---|---|
class |
DataArea
All classes representing a data area in an
AlignmentArea must be inherited from this class. |
class |
DataAreaSequenceChangeListener
Helper class used by
DataAreasModel to inform the data areas it contains about changes in the
associated AlignmentModel . |
Modifier and Type | Class and Description |
---|---|
class |
ConsensusSequenceArea
A data area that displays the consensus sequence of an alignment.
|
class |
LabelDataArea
A simple data area implementation that displays one line of text.
|
Modifier and Type | Class and Description |
---|---|
class |
CharSetArea
A data area displaying different character sets associated with the current alignment, as they are e.g.
|
Modifier and Type | Class and Description |
---|---|
class |
PherogramArea
A data area displaying a trace file resulting from Sanger sequencing.
|
Modifier and Type | Class and Description |
---|---|
class |
SequenceIndexArea
A data area displaying the indices of aligned sequences.
|
Modifier and Type | Class and Description |
---|---|
class |
AlignmentModelChangeAdapter
Provides empty implementations for all listener methods of
AlignmentModelChangeListener . |
Modifier and Type | Method and Description |
---|---|
java.util.Set<AlignmentModelChangeListener> |
AlignmentModel.getChangeListeners()
Returns all change listeners currently attached to this object.
|
Modifier and Type | Method and Description |
---|---|
java.util.Set<AlignmentModelChangeListener> |
AbstractAlignmentModel.getChangeListeners() |
Modifier and Type | Method and Description |
---|---|
java.util.Set<AlignmentModelChangeListener> |
AbstractTokenReplacementAlignmentModelDecorator.getChangeListeners() |
java.util.Set<AlignmentModelChangeListener> |
DelegatedAlignmentModelView.getChangeListeners() |
Modifier and Type | Class and Description |
---|---|
class |
MultipleAlignmentsModelEventForwarder
Forwards events from alignment and data models of a single alignment area contained in a
MultipleAlignmentsContainer to all other alignment areas in that container. |