## Uses of Class
org.biojava.bio.structure.align.StructurePairAligner

Packages that use StructurePairAligner
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.events: Some event classes for the protein structure GUIs.
org.biojava.bio.structure.gui.util: Some utility classes for the protein structure GUIs.

Uses of StructurePairAligner in org.biojava.bio.structure.gui

Methods in org.biojava.bio.structure.gui that return StructurePairAligner
`StructurePairAligner` `SequenceDisplay.getStructurePairAligner()`

Methods in org.biojava.bio.structure.gui with parameters of type StructurePairAligner
`void` `SequenceDisplay.setStructurePairAligner(StructurePairAligner structurePairAligner)`

Constructors in org.biojava.bio.structure.gui with parameters of type StructurePairAligner
`SequenceDisplay(StructurePairAligner structurePairAligner)`

Uses of StructurePairAligner in org.biojava.bio.structure.gui.events

Constructors in org.biojava.bio.structure.gui.events with parameters of type StructurePairAligner
`JmolAlignedPositionListener(BiojavaJmol parent, StructurePairAligner alig)`

Uses of StructurePairAligner in org.biojava.bio.structure.gui.util

Methods in org.biojava.bio.structure.gui.util with parameters of type StructurePairAligner
`void` `AlternativeAlignmentFrame.setStructurePairAligner(StructurePairAligner aligner)`