Class SequenceRegion

  • All Implemented Interfaces:
    Locatable

    public class SequenceRegion
    extends Object
    implements Locatable
    Represents a sequence region feature in a gff3 file. May be linear or circular.
    • Method Detail

      • getContig

        public String getContig()
        Description copied from interface: Locatable
        Gets the contig name for the contig this is mapped to. May return null if there is no unique mapping.
        Specified by:
        getContig in interface Locatable
        Returns:
        name of the contig this is mapped to, potentially null
      • getStart

        public int getStart()
        Specified by:
        getStart in interface Locatable
        Returns:
        1-based start position, undefined if getContig() == null
      • getEnd

        public int getEnd()
        Specified by:
        getEnd in interface Locatable
        Returns:
        1-based closed-ended position, undefined if getContig() == null
      • isCircular

        public boolean isCircular()