Package org.snpeff.interval

Class VariantNonRef

java.lang.Object
org.snpeff.interval.Interval
org.snpeff.interval.Marker
org.snpeff.interval.Variant
org.snpeff.interval.VariantNonRef
All Implemented Interfaces:
Serializable, Cloneable, Comparable<Interval>, TxtSerializable
public class VariantNonRef extends Variant
A variant respect to non-reference (e.g. comparing cancer vs. somatic tissue).
Author:
pcingola
See Also:

  • Constructor Details

    • VariantNonRef

      public VariantNonRef()

    • VariantNonRef

      public VariantNonRef(Variant variant, Variant variantRef)

  • Method Details

    • getGenotype

      public String getGenotype()
      Overrides:
      getGenotype in class Variant

    • getVariantRef

      public Variant getVariantRef()

    • isNonRef

      public boolean isNonRef()
      Overrides:
      isNonRef in class Variant

    • realignLeft

      public Variant realignLeft()
      Description copied from class: Variant
      Create a new variant realigning it towards the leftmost position
      Overrides:
      realignLeft in class Variant

    • setVariantRef

      public void setVariantRef(Variant variantRef)

    • toString

      public String toString()
      Overrides:
      toString in class Variant