| Package | Description |
|---|---|
| info.bioinfweb.libralign.actions | |
| 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.adapters |
Contains adapter classes that allow to access the data provided by
BasicAlignmentModelView in other ways
(e.g. |
| info.bioinfweb.libralign.model.concatenated |
Contains the interface
ConcatenatedAlignmentModel and
related implementations. |
| info.bioinfweb.libralign.model.events |
Contains the event objects used by implementations of
AlignmentModel. |
| info.bioinfweb.libralign.model.exception |
Contains exceptions thrown by implementations of
AlignmentModel. |
| info.bioinfweb.libralign.model.factory |
Contains factory classes to create instances of implementations of
AlignmentModel. |
| info.bioinfweb.libralign.model.factory.biojava |
Contains alignment models working with BioJava
Compounds. |
| info.bioinfweb.libralign.model.factory.continuous |
Contains factories for alignment models that work with continuous values (e.g.
|
| info.bioinfweb.libralign.model.implementations |
Contains common implementations of
AlignmentModel
which are part of LibrAlign. |
| info.bioinfweb.libralign.model.implementations.decorate | |
| info.bioinfweb.libralign.model.implementations.swingundo |
Contains classes that allow to edit the underlying data source of an implementation of
AlignmentModel using swing edit objects
(implementations of UndoableEdit). |
| info.bioinfweb.libralign.model.io | |
| info.bioinfweb.libralign.model.utils |
Contains utility classes to be used with implementations of
AlignmentModel. |
| info.bioinfweb.libralign.model.utils.indextranslation | |
| info.bioinfweb.libralign.multiplealignments |
Contains classes used in the implementation of
MultipleAlignmentsContainer
which allow to combine several AlignmentAreas. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |
| AlignmentModelWriteType
Specifies if whole sequences or single tokens can be edited in the underlying data source of the
implementation of an
AlignmentModel. |
| BasicAlignmentModelView
Classes implementing this interface provide access to the data provided by an implementation of
AlignmentModel in a modified way. |
| SequenceAccess
Implementations of
AlignmentModel or SequenceDataAdapter that provide access to
a sequence object representing a row in the alignment should implement this interface. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| BasicAlignmentModelView
Classes implementing this interface provide access to the data provided by an implementation of
AlignmentModel in a modified way. |
| SequenceAccess
Implementations of
AlignmentModel or SequenceDataAdapter that provide access to
a sequence object representing a row in the alignment should implement this interface. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |
| AlignmentModelWriteType
Specifies if whole sequences or single tokens can be edited in the underlying data source of the
implementation of an
AlignmentModel. |
| SequenceAccess
Implementations of
AlignmentModel or SequenceDataAdapter that provide access to
a sequence object representing a row in the alignment should implement this interface. |
| SequenceAccessAlignmentModel
Interface for classes implementing
AlignmentModel by using sequence objects. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |
| AlignmentModelView
This interface should be implemented by all classes which return the contents of another implementation
of
AlignmentModel in a modified way. |
| AlignmentModelWriteType
Specifies if whole sequences or single tokens can be edited in the underlying data source of the
implementation of an
AlignmentModel. |
| BasicAlignmentModelView
Classes implementing this interface provide access to the data provided by an implementation of
AlignmentModel in a modified way. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelView
This interface should be implemented by all classes which return the contents of another implementation
of
AlignmentModel in a modified way. |
| AlignmentModelWriteType
Specifies if whole sequences or single tokens can be edited in the underlying data source of the
implementation of an
AlignmentModel. |
| BasicAlignmentModelView
Classes implementing this interface provide access to the data provided by an implementation of
AlignmentModel in a modified way. |
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| Class and Description |
|---|
| AlignmentModel
Interface that allows LibrAlign GUI elements to access different types of alignment data sources.
|
| AlignmentModelChangeListener
This interface should be implemented by classes that want to track changes in the stored data
of an implementation of
AlignmentModel. |