Package util

Interface Summary
FileDrop.Listener Implement this inner interface to listen for when files are dropped.
FileDrop.TransferableObject.Fetcher Instead of passing your data directly to the FileDrop.TransferableObject constructor, you may want to know exactly when your data was received in case you need to remove it from its source (or do anyting else to it).
 

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  
BlastPDB  
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  
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  
PngFileFilter File filter for *.png files.
PrintUtilities  
ResidueSelectionManager  
RunMethods  
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.