Class Hgvs

java.lang.Object
org.snpeff.snpEffect.Hgvs
Direct Known Subclasses:
HgvsDna, HgvsProtein

public class Hgvs extends Object
HGSV notation References: http://www.hgvs.org/
Author:
pcingola
  • Field Details

    • MAX_SEQUENCE_LEN_HGVS

      public static final int MAX_SEQUENCE_LEN_HGVS
      See Also:
    • variantEffect

      protected VariantEffect variantEffect
    • variant

      protected Variant variant
    • marker

      protected Marker marker
    • tr

      protected Transcript tr
    • genome

      protected Genome genome
    • duplication

      protected boolean duplication
    • strandPlus

      protected boolean strandPlus
    • strandMinus

      protected boolean strandMinus
    • hgvsTrId

      protected boolean hgvsTrId
  • Constructor Details

  • Method Details

    • parseTranscript

      public static String parseTranscript(String hgvs)
    • removeTranscript

      public static String removeTranscript(String hgvs)
    • initStrand

      protected void initStrand()