Class NextProtXmlEntry


  • public class NextProtXmlEntry
    extends NextProtXmlNode
    Mimics the 'entry' in a NextProt XML file
    Author:
    Pablo Cingolani
    • Constructor Detail

      • NextProtXmlEntry

        public NextProtXmlEntry​(java.lang.String accession,
                                NextProtHandler handler)
    • Method Detail

      • addIsoformSequence

        public void addIsoformSequence​(java.lang.String isoformAccession,
                                       java.lang.String sequence)
        Add an Isoform sequence
      • addMarkers

        public void addMarkers​(NextProtMarkerFactory markersFactory)
        Create all Markers for this entry
      • getIdentifiers

        public java.util.Set<org.snpeff.nextProt.Identifier> getIdentifiers()
      • getIsoform

        public NextProtXmlIsoform getIsoform​(java.lang.String isoformAccession)
        Get or create an isoform
      • getIsoformsByAccession

        public java.util.Map<java.lang.String,​NextProtXmlIsoform> getIsoformsByAccession()
      • getOrCreateIsoform

        public NextProtXmlIsoform getOrCreateIsoform​(java.lang.String isoformAccession)
      • toString

        public java.lang.String toString()
        Overrides:
        toString in class java.lang.Object