Class Summary |
AAMap |
This class represents a default map for the 3-letter to 1-letter amino acid coding. |
Alignment |
This class does a simple alignment by using a dot plot matrix for
the PDB and the given alignment sequence. |
AlignmentExporter |
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BlastPDB |
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ColorScheme |
This class represents the color scheme for the amino acids in the alignment. |
Constants |
This class defines some constants for the whole software. |
FastaFileFilter |
File filter for *.mfa files. |
FileDrop |
This class makes it easy to drag and drop files from the operating
system to a Java program. |
FileDrop.Event |
This is the event that is passed to the
filesDropped(...) method in
your FileDropListener when files are dropped onto
a registered drop target. |
FileDrop.TransferableObject |
At last an easy way to encapsulate your custom objects for dragging and dropping
in your Java programs! |
FilterAlignment |
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ImageExporter |
With this class the alignment panel can be exported to a PNG file. |
PDBFile |
This class uses the PDB library. |
PdbFileOpener |
This class is for loading an compressed PDB file from the FTP Server and uncompressing it. |
PluginLoader |
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PngFileFilter |
File filter for *.png files. |
PrintUtilities |
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ResidueSelectionManager |
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RunMethods |
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ScreenConfig |
Provides some helper routines for screen configuration. |
SelectionManager |
This manager class handles the selections made by the user. |
SequenceLogo |
This class draws a sequence logo from the current selection |
SequenceManager |
This class handles marking a sequence for the alignment. |
SequenceOrderer |
This helper class puts the sequence in order, so that they are put into cluster groups. |