Package org.snpeff.nextProt
Class NextProtSequenceConservation
- java.lang.Object
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- org.snpeff.nextProt.NextProtSequenceConservation
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public class NextProtSequenceConservation extends java.lang.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
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Field Summary
Fields Modifier and Type Field Description static int
HIGHLY_CONSERVED_AA_COUNT
static double
HIGHLY_CONSERVED_AA_PERCENT
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Constructor Summary
Constructors Constructor Description NextProtSequenceConservation()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description void
add(java.lang.String category, java.lang.String aaSequence)
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Field Detail
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HIGHLY_CONSERVED_AA_PERCENT
public static final double HIGHLY_CONSERVED_AA_PERCENT
- See Also:
- Constant Field Values
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HIGHLY_CONSERVED_AA_COUNT
public static final int HIGHLY_CONSERVED_AA_COUNT
- See Also:
- Constant Field Values
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