org.snpeff.interval.codonChange.CodonChangeIns

public class CodonChangeIns extends CodonChange

Calculate codon changes produced by an insertion

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

Modifier and Type

Method

Description

protected boolean

codonChange(Exon exon)

Analyze insertions in this transcript.

protected 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

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Details
- CodonChangeIns
  
  public CodonChangeIns(Variant variant, Transcript transcript, VariantEffects changeEffects)
Method Details
- codonChange
  
  protected boolean codonChange(Exon exon)
  
  Analyze insertions in this transcript. Add changeEffect to 'changeEffect'
  
  Overrides:
  
  codonChange in class CodonChange
- codonsAlt
  
  protected String codonsAlt()
  
  Get new (modified) codons
  
  Overrides:
  
  codonsAlt in class CodonChange

Class CodonChangeIns

Field Summary