Class VcfLof

  • Direct Known Subclasses:
    VcfNmd

    public class VcfLof
    extends java.lang.Object
    An 'LOF' entry in a vcf line
    Author:
    pablocingolani
    • Constructor Detail

      • VcfLof

        public VcfLof​(Gene gene,
                      double percentAffected)
      • VcfLof

        public VcfLof​(java.lang.String lofStr)
      • VcfLof

        public VcfLof​(java.lang.String geneName,
                      java.lang.String geneId,
                      int numTranscripts,
                      double percentAffected)
      • VcfLof

        public VcfLof​(VcfEntry vcfEntry,
                      java.lang.String lofStr)
    • Method Detail

      • fieldNum

        public static int fieldNum​(java.lang.String name)
        Convert from field name to field number
      • getGeneId

        public java.lang.String getGeneId()
      • getGeneName

        public java.lang.String getGeneName()
      • getNumTranscripts

        public int getNumTranscripts()
      • getPercentAffected

        public double getPercentAffected()
      • getPercentAffectedStr

        public java.lang.String getPercentAffectedStr()
      • getVcfEntry

        public VcfEntry getVcfEntry()
      • toString

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