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Packages that use AlternativeAlignment | |
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org.biojava.bio.structure.align | Classes for the super-imposition of structures. |
org.biojava.bio.structure.align.pairwise | Classes for the pairwise alignment of structures. |
org.biojava.bio.structure.gui | A few convenience classes to view protein structures with Jmol (if it is on the classpath), to calculate a protein structure alignment and to investigate the internals of the protein structure alignment algorithm. |
org.biojava.bio.structure.gui.util | Some utility classes for the protein structure GUIs. |
Uses of AlternativeAlignment in org.biojava.bio.structure.align |
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Methods in org.biojava.bio.structure.align that return AlternativeAlignment | |
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AlternativeAlignment[] |
StructurePairAligner.getAlignments()
return the alternative alignments that can be found for the two structures |
Methods in org.biojava.bio.structure.align with parameters of type AlternativeAlignment | |
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static void |
ClusterAltAligs.cluster(AlternativeAlignment[] aligs)
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static void |
ClusterAltAligs.cluster(AlternativeAlignment[] aligs,
int cutoff)
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Uses of AlternativeAlignment in org.biojava.bio.structure.align.pairwise |
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Methods in org.biojava.bio.structure.align.pairwise with parameters of type AlternativeAlignment | |
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int |
AltAligComparator.compare(AlternativeAlignment a,
AlternativeAlignment b)
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Uses of AlternativeAlignment in org.biojava.bio.structure.gui |
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Methods in org.biojava.bio.structure.gui that return AlternativeAlignment | |
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AlternativeAlignment[] |
JMatrixPanel.getAlternativeAligs()
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AlternativeAlignment[] |
ScaleableMatrixPanel.getAlternativeAligs()
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Methods in org.biojava.bio.structure.gui with parameters of type AlternativeAlignment | |
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void |
SequenceDisplay.setAlternativeAlignment(AlternativeAlignment alig)
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void |
JMatrixPanel.setAlternativeAligs(AlternativeAlignment[] aligs)
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void |
ScaleableMatrixPanel.setAlternativeAligs(AlternativeAlignment[] aligs)
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Uses of AlternativeAlignment in org.biojava.bio.structure.gui.util |
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Methods in org.biojava.bio.structure.gui.util with parameters of type AlternativeAlignment | |
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void |
AlternativeAlignmentFrame.setAlternativeAlignments(AlternativeAlignment[] aligs)
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