Package org.snpeff.interval.codonChange
Class CodonChangeIns
- java.lang.Object
-
- org.snpeff.interval.codonChange.CodonChange
-
- org.snpeff.interval.codonChange.CodonChangeIns
-
public class CodonChangeIns extends CodonChange
Calculate codon changes produced by an insertion- Author:
- pcingola
-
-
Field Summary
-
Fields inherited from class org.snpeff.interval.codonChange.CodonChange
CODON_SIZE, showCodonChange
-
-
Constructor Summary
Constructors Constructor Description CodonChangeIns(Variant variant, Transcript transcript, VariantEffects changeEffects)
-
Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description protected boolean
codonChange(Exon exon)
Analyze insertions in this transcript.protected java.lang.String
codonsAlt()
Get new (modified) codons-
Methods inherited from class org.snpeff.interval.codonChange.CodonChange
additionalEffect, cdsBaseNumber, codonChange, codonsRef, codonsRef, effect, effectNoCodon, effectNoCodon, factory, intersectsExons, netCdsChange, toString
-
-
-
-
Constructor Detail
-
CodonChangeIns
public CodonChangeIns(Variant variant, Transcript transcript, VariantEffects changeEffects)
-
-
Method Detail
-
codonChange
protected boolean codonChange(Exon exon)
Analyze insertions in this transcript. Add changeEffect to 'changeEffect'- Overrides:
codonChange
in classCodonChange
-
codonsAlt
protected java.lang.String codonsAlt()
Get new (modified) codons- Overrides:
codonsAlt
in classCodonChange
-
-