Package 

Class ReferenceRange

    • Nested Class Summary

      Nested Classes 
      Modifier and Type Class Description

    • Field Summary

      Fields 
      Modifier and Type Field Description

    • Constructor Summary

      Constructors 
      Constructor Description
      ReferenceRange(String referenceName, Chromosome chromosome, int start, int end, int id)
      ReferenceRange(String referenceName, Chromosome chromosome, int start, int end, int id, String method)
      ReferenceRange(String referenceName, Chromosome chromosome, int start, int end, int id, ImmutableSet<String> methods)

    • Enum Constant Summary

      Enum Constants 
      Enum Constant Description

    • Method Summary

      Modifier and Type Method Description
      Chromosome chromosome() Chromosome in the reference genome from which this ReferenceRange originates
      int start() Start position of reference range, inclusive
      int end() End position of reference range, inclusive
      int id() Identifier for a unique reference range
      Set<String> groupMethods() Returns group methods that this range belongs.
      boolean isPartOf(String groupMethod) Returns whether this reference range is part of specifed group.
      String referenceName() Reference genome (B73, CML247, EP1, etc) from which the reference range originates
      String intervalString()
      String toString()
      int compareTo(ReferenceRange o)
      boolean equals(Object o)
      int hashCode()

      • Methods inherited from class java.lang.Object

        clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

    • Constructor Detail

      • ReferenceRange

        ReferenceRange(String referenceName, Chromosome chromosome, int start, int end, int id)

      • ReferenceRange

        ReferenceRange(String referenceName, Chromosome chromosome, int start, int end, int id, String method)

      • ReferenceRange

        ReferenceRange(String referenceName, Chromosome chromosome, int start, int end, int id, ImmutableSet<String> methods)

    • Method Detail

      • chromosome

         Chromosome chromosome()

        Chromosome in the reference genome from which this ReferenceRange originates

      • start

         int start()

        Start position of reference range, inclusive

      • end

         int end()

        End position of reference range, inclusive

      • id

         int id()

        Identifier for a unique reference range

      • isPartOf

         boolean isPartOf(String groupMethod)

        Returns whether this reference range is part of specifed group.

        Parameters:
        groupMethod - group method

      • referenceName

         String referenceName()

        Reference genome (B73, CML247, EP1, etc) from which the reference range originates