Class NextProt

  • All Implemented Interfaces:
    java.io.Serializable, java.lang.Cloneable, java.lang.Comparable<Interval>, TxtSerializable

    public class NextProt
    extends Marker
    NextProt annotation marker
    Author:
    pcingola
    See Also:
    Serialized Form
    • Constructor Detail

      • NextProt

        public NextProt()
      • NextProt

        public NextProt​(Transcript transcript,
                        int start,
                        int end,
                        java.lang.String id)
      • NextProt

        public NextProt​(Transcript transcript,
                        int start,
                        int end,
                        java.lang.String id,
                        java.lang.String name)
    • Method Detail

      • getName

        public java.lang.String getName()
      • getTranscriptId

        public java.lang.String getTranscriptId()
      • isDeferredAnalysis

        public boolean isDeferredAnalysis()
        Deferred analysis markers must be analyzed after 'standard' ones because their impact depends on other results For instance, a NextProt marker's impact would be different if the variant is synonymous or non-synonymous
        Overrides:
        isDeferredAnalysis in class Marker
      • isHighlyConservedAaSequence

        public boolean isHighlyConservedAaSequence()
      • setHighlyConservedAaSequence

        public void setHighlyConservedAaSequence​(boolean highlyConservedAaSequence)