Class Summary |
AlignFrame |
This class represents the main user interface containing the different panels,
such as the alignment panel. |
AlignPanel |
Represents the whole alignment panel. |
AlignViewProps |
Defines the view properties for the alignment. |
Cluster3DFrame |
This class draws a window containing a graphical representation of clusters defined by S3Det. |
ClusterWindowListener |
Default StructureWindowListener class, handles what happens when the Structure3DFrame is closed. |
ColorSchemeInfo |
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IndexPanel |
This class represents the index of the sequence alignment. |
LoadAlignFrame |
This the main entry point to the application. |
LoadMethodFrame |
This is the load frame for a user-defined method. |
LoadS3DetFrame |
This the load frame for the S3Det method. |
LoadStructureFrame |
This class is the loading frame for the JMolViewer. |
LoadXDetFrame |
This the load frame for the XDet method. |
MethodPanel |
This class represents the panel where the methods are applied. |
MyCallbackListener |
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NamePainter |
Represents the painter class for the protein names. |
NamePanel |
This panel class is mainly uses by the NameRenderer for the proteinID aka. name strings. |
PickPointsBehavior |
This class defines the behavior needed for selecting items on Cluster3DFrame |
SelectionFrame |
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SeparatorPanel |
Used to separate the sections of the StatusPanel. |
SequencePainter |
This class does all the sequence painting,
implements Observable, as the structure frame listens to the mouse events on the alignment panel. |
SequencePanel |
This panel class is mainly uses by the SeqRenderer for the protein sequences. |
SliderChangeListener |
This class is an extension to the simple change listener on a JSlider object. |
SliderKeyAdapter |
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SliderPanel |
Represents the panel on the upper left corner which contains the threshold panels + sliders. |
StatusPanel |
Extended StatusPanel for showing the alignment name, the sequence length and the sequence number. |
Structure3DFrame |
This class is the viewer for the protein 3D structure. |
StructureWindowListener |
Default StructureWindowListener class, handles what happens when the Structure3DFrame is closed. |