| Package | Description |
|---|---|
| info.bioinfweb.libralign.model.factory |
Contains factory classes to create instances of implementations of
AlignmentModel. |
| 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). |
| Class and Description |
|---|
| SequenceIDManager
Manages mappings between sequence IDs and sequence names.
|
| Class and Description |
|---|
| AbstractAlignmentModel
This is the base class for all alignment models and alignment model decorators.
|
| AbstractListAlignmentModel
An abstract implementation of
AlignmentModel using a map of lists to store alignment data. |
| AbstractMapBasedAlignmentModel
Implements all methods dealing with the organization of the sequence set using some implementation
of
Map to identify the sequence object belonging to a sequence ID. |
| AbstractUndecoratedAlignmentModel
Implements general functionality for alignment models that are not decorators of other models.
|
| AbstractUnmodifyableAlignmentModel
Implements basic functionality for a map based alignment model that uses unmodifiable sequence
objects as its underlying data source.
|
| BioJava3SequenceAlignmentModel
/**
An implementation of
AlignmentModel backed by a set of BioJava Sequence implementations. |
| SequenceIDManager
Manages mappings between sequence IDs and sequence names.
|
| Class and Description |
|---|
| AbstractAlignmentModel
This is the base class for all alignment models and alignment model decorators.
|
| Class and Description |
|---|
| AbstractAlignmentModel
This is the base class for all alignment models and alignment model decorators.
|