Class NextProtSequenceConservation

java.lang.Object
org.snpeff.nextProt.NextProtSequenceConservation

public class NextProtSequenceConservation extends Object
A simple analysis of sequence conservation for each entry type Why? Many NextProt annotations are only a few amino acids long (or only 1 AA) and often they only involve very specific sequences If the sequence is highly conserved and a non-synonymous mutation occurs, then this might be disruptive (i.e. HIGH IMPACT)
Author:
Pablo Cingolani
  • Field Details

    • HIGHLY_CONSERVED_AA_PERCENT

      public static final double HIGHLY_CONSERVED_AA_PERCENT
      See Also:
    • HIGHLY_CONSERVED_AA_COUNT

      public static final int HIGHLY_CONSERVED_AA_COUNT
      See Also:
  • Constructor Details

    • NextProtSequenceConservation

      public NextProtSequenceConservation()
  • Method Details

    • add

      public void add(String category, String aaSequence)