Uses of Class
org.biojava.nbio.structure.align.pairwise.AlternativeAlignment
Packages that use AlternativeAlignment
Package
Description
Classes for the alignment of structures.
Classes for the pairwise alignment of structures.
-
Uses of AlternativeAlignment in org.biojava.nbio.structure.align
Methods in org.biojava.nbio.structure.align that return AlternativeAlignmentModifier and TypeMethodDescriptionStructurePairAligner.getAlignments()return the alternative alignments that can be found for the two structuresMethods in org.biojava.nbio.structure.align with parameters of type AlternativeAlignmentModifier and TypeMethodDescriptionstatic voidClusterAltAligs.cluster(AlternativeAlignment[] aligs) static voidClusterAltAligs.cluster(AlternativeAlignment[] aligs, int cutoff) -
Uses of AlternativeAlignment in org.biojava.nbio.structure.align.pairwise
Methods in org.biojava.nbio.structure.align.pairwise that return AlternativeAlignmentMethods in org.biojava.nbio.structure.align.pairwise with parameters of type AlternativeAlignmentModifier and TypeMethodDescriptionintAltAligComparator.compare(AlternativeAlignment a, AlternativeAlignment b) voidAlignmentResult.setAlignments(AlternativeAlignment[] alignments) we only keep the first alternative... -
Uses of AlternativeAlignment in org.biojava.nbio.structure.gui
Methods in org.biojava.nbio.structure.gui that return AlternativeAlignmentModifier and TypeMethodDescriptionJMatrixPanel.getAlternativeAligs()ScaleableMatrixPanel.getAlternativeAligs()Methods in org.biojava.nbio.structure.gui with parameters of type AlternativeAlignmentModifier and TypeMethodDescriptionvoidSequenceDisplay.setAlternativeAlignment(AlternativeAlignment alig) voidJMatrixPanel.setAlternativeAligs(AlternativeAlignment[] aligs) voidScaleableMatrixPanel.setAlternativeAligs(AlternativeAlignment[] aligs) -
Uses of AlternativeAlignment in org.biojava.nbio.structure.gui.util
Methods in org.biojava.nbio.structure.gui.util with parameters of type AlternativeAlignmentModifier and TypeMethodDescriptionvoidAlternativeAlignmentFrame.setAlternativeAlignments(AlternativeAlignment[] aligs)