org.biojava.nbio.structure.align.gui.StructureAlignmentDisplay

public class StructureAlignmentDisplay extends Object

Constructor Details
- StructureAlignmentDisplay
  
  public StructureAlignmentDisplay()
Method Details
- display
  
  public static StructureAlignmentJmol display(AFPChain afpChain, Atom[] ca1, Atom[] ca2) throws StructureException
  
  Display an AFPChain alignment
  
  Parameters:
  
  afpChain -
  
  ca1 -
  
  ca2 -
  
  Returns:
  
  a StructureAlignmentJmol instance
  
  Throws:
  
  StructureException
- prepareGroupsForDisplay
  
  public static Group[] prepareGroupsForDisplay(AFPChain afpChain, Atom[] ca1, Atom[] ca2) throws StructureException
  
  Rotate the Atoms/Groups so they are aligned for the 3D visualisation
  
  Parameters:
  
  afpChain -
  
  ca1 -
  
  ca2 -
  
  Returns:
  
  an array of Groups that are transformed for 3D display
  
  Throws:
  
  StructureException
- shiftCA2
  
  public static void shiftCA2(AFPChain afpChain, Atom[] ca2, Matrix m, Atom shift, Group[] twistedGroups)
  
  only shift CA positions.

Class StructureAlignmentDisplay

Constructor Summary