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

Class Helix

java.lang.Object
org.biojava.nbio.structure.symmetry.core.Helix
public class Helix extends Object
Author:
Peter

  • Constructor Details

    • Helix

      public Helix()

  • Method Details

    • getScores

      public QuatSymmetryScores getScores()
      Returns:
      the scores

    • setScores

      public void setScores(QuatSymmetryScores scores)
      Parameters:
      scores - the scores to set

    • getPermutation

      public List<Integer> getPermutation()
      Returns:
      the permutation

    • setPermutation

      public void setPermutation(List<Integer> permutation)
      Parameters:
      permutation - the permutation to set

    • getRepeatUnits

      public List<List<Integer>> getRepeatUnits()

    • setRepeatUnits

      public void setRepeatUnits(List<List<Integer>> repeatUnits)

    • getTransformation

      public javax.vecmath.Matrix4d getTransformation()
      Returns:
      the transformation

    • setTransformation

      public void setTransformation(javax.vecmath.Matrix4d transformation)
      Parameters:
      transformation - the transformation to set

    • getRise

      public double getRise()

    • setRise

      public void setRise(double rise)

    • getAngle

      public double getAngle()
      Returns the pitch angle of the helix
      Parameters:
      transformation - helix transformation
      Returns:

    • getAxisAngle

      public javax.vecmath.AxisAngle4d getAxisAngle()
      Returns the AxisAngle of the helix transformation
      Parameters:
      transformation - helix transformation
      Returns:

    • getnStart

      public int getnStart()

    • setnStart

      public void setnStart(int nStart)

    • getFold

      public int getFold()
      Returns:
      the fold

    • setFold

      public void setFold(int fold)
      Parameters:
      fold - the fold to set

    • getContacts

      public int getContacts()

    • setContacts

      public void setContacts(int contacts)

    • toString

      public String toString()
      Overrides:
      toString in class Object

    • getLayerLines

      public List<List<Integer>> getLayerLines()