Package org.biojava.nbio.structure.symmetry.core

Class QuatSymmetryResults

java.lang.Object
org.biojava.nbio.structure.symmetry.core.QuatSymmetryResults
public class QuatSymmetryResults extends Object
Holds the results of quaternary symmetry perception.
Author:
Peter Rose

  • Constructor Details

  • Method Details

    • getSubunits

      public Subunits getSubunits()
      Returns protein subunit information that was used to determine symmetry information
      Returns:

    • getRotationGroup

      public RotationGroup getRotationGroup()
      Returns rotation group (point group) information representing rotational quaternary symmetry, see http://en.wikipedia.org/wiki/Rotation_group_SO(3)
      Returns:
      rotation group

    • getHelixLayers

      public HelixLayers getHelixLayers()

    • getMethod

      public String getMethod()
      Returns name of method used for symmetry perception.
      Returns:
      method

    • getSymmetry

      public String getSymmetry()
      Returns the symmetry group. For point groups returns the point group symbol and for helical symmetry returns "H".
      Returns:
      symmetry symbol

    • getScores

      public QuatSymmetryScores getScores()

    • getAverageTraceRmsd

      @Deprecated public double getAverageTraceRmsd()
      Deprecated.
      use getScores() instead.
      Returns the average Calpha trace RMSD for all symmetry operations
      Returns:

    • getAverageTraceTmScoreMin

      @Deprecated public double getAverageTraceTmScoreMin()
      Deprecated.
      use getScores() instead.
      Returns the average Calpha trace Tm for all symmetry operations
      Returns:

    • getNucleicAcidChainCount

      public int getNucleicAcidChainCount()

    • getSequenceIdentityThreshold

      public double getSequenceIdentityThreshold()

    • setSequenceIdentityThreshold

      public void setSequenceIdentityThreshold(double sequenceIdentityThreshold)

    • toString

      public String toString()
      Overrides:
      toString in class Object

    • isLocal

      public boolean isLocal()
      Return true
      Returns:

    • setLocal

      public void setLocal(boolean local)

    • isPreferredResult

      public boolean isPreferredResult()

    • setPreferredResult

      public void setPreferredResult(boolean preferredResult)