Uses of Class
org.snpeff.snpEffect.VariantEffect.EffectImpact

Packages that use VariantEffect.EffectImpact

Package	Description
org.snpeff.interval.codonChange
org.snpeff.snpEffect
org.snpeff.snpEffect.testCases.unity
org.snpeff.vcf

Uses of VariantEffect.EffectImpact in org.snpeff.interval.codonChange

Methods in org.snpeff.interval.codonChange with parameters of type VariantEffect.EffectImpact

Modifier and Type	Method	Description
protected VariantEffect	CodonChange.effectNoCodon(Marker marker, EffectType effectType, VariantEffect.EffectImpact effectImpact)

Uses of VariantEffect.EffectImpact in org.snpeff.snpEffect

Fields in org.snpeff.snpEffect declared as VariantEffect.EffectImpact

Modifier and Type	Field	Description
protected VariantEffect.EffectImpact	VariantEffect.effectImpact

Fields in org.snpeff.snpEffect with type parameters of type VariantEffect.EffectImpact

Modifier and Type	Field	Description
protected java.util.List<VariantEffect.EffectImpact>	VariantEffect.effectImpacts

Methods in org.snpeff.snpEffect that return VariantEffect.EffectImpact

Modifier and Type	Method	Description
VariantEffect.EffectImpact	EffectType.effectImpact()	Return effect impact
VariantEffect.EffectImpact	VariantEffect.getEffectImpact()	Return impact of this effect
VariantEffect.EffectImpact	VariantEffects.highestImpact(java.lang.String trId)	Find the highest impact effect for transcript 'trId'
static VariantEffect.EffectImpact	VariantEffect.EffectImpact.valueOf(java.lang.String name)	Returns the enum constant of this type with the specified name.
static VariantEffect.EffectImpact[]	VariantEffect.EffectImpact.values()	Returns an array containing the constants of this enum type, in the order they are declared.

Methods in org.snpeff.snpEffect with parameters of type VariantEffect.EffectImpact

Modifier and Type	Method	Description
void	VariantEffects.add(Variant variant, Marker marker, EffectType effectType, VariantEffect.EffectImpact effectImpact, java.lang.String message)	Add an effect
void	VariantEffect.addEffectImpact(VariantEffect.EffectImpact effectImpact)
boolean	VariantEffect.hasEffectImpact(VariantEffect.EffectImpact effectImpact)
void	VariantEffect.set(Marker marker, EffectType effectType, VariantEffect.EffectImpact effectImpact, java.lang.String message)
void	VariantEffect.setEffectImpact(VariantEffect.EffectImpact effectImpact)

Constructors in org.snpeff.snpEffect with parameters of type VariantEffect.EffectImpact

Constructor	Description
VariantEffect(Variant variant, Marker marker, EffectType effectType, VariantEffect.EffectImpact effectImpact, java.lang.String codonsOld, java.lang.String codonsNew, int codonNum, int codonIndex, int cDnaPos)

Uses of VariantEffect.EffectImpact in org.snpeff.snpEffect.testCases.unity

Methods in org.snpeff.snpEffect.testCases.unity with parameters of type VariantEffect.EffectImpact

Modifier and Type	Method	Description
protected void	TestCasesBase.checkEffect(Variant variant, EffectType effectExpected, EffectType effectNotExpected, VariantEffect.EffectImpact impact)
void	TestGenome.checkEffect(Variant variant, EffectType effectTypeExpected, VariantEffect.EffectImpact effectImpactExpected, int countMatchExpected)	Apply a predictor to a variant and check whether the expected number of matches are found
protected void	TestCasesStructuralDel.checkEffects(Variant variant, EffectType[] expEffs, java.lang.String[] expHgvsp, java.lang.String[] expHgvsc, VariantEffect.EffectImpact expectedImpact, java.lang.String[] expAnns)
protected void	TestCasesStructuralDup.checkEffects(Variant variant, EffectType[] expEffs, java.lang.String[] expHgvsp, java.lang.String[] expHgvsc, VariantEffect.EffectImpact expectedImpact, java.lang.String[] expAnns)
protected void	TestCasesStructuralInv.checkEffects(Variant variant, EffectType[] expEffs, java.lang.String[] expHgvsc, VariantEffect.EffectImpact expectedImpact, java.lang.String[] expAnns)
protected void	TestCasesStructuralInv.checkEffects(Variant variant, EffectType[] expEffs, java.lang.String[] expHgvsc, VariantEffect.EffectImpact expectedImpact, java.lang.String[] expAnns, Gene[] genesToAdd)
protected void	TestCasesStructuralTranslocations.checkEffects(Variant variant, EffectType[] expEffs, EffectType[] notExpEffs, java.lang.String[] expHgvsp, java.lang.String[] expHgvsc, VariantEffect.EffectImpact expectedImpact)

Uses of VariantEffect.EffectImpact in org.snpeff.vcf

Methods in org.snpeff.vcf that return VariantEffect.EffectImpact

Modifier and Type	Method	Description
VariantEffect.EffectImpact	VcfEffect.getImpact()

Methods in org.snpeff.vcf with parameters of type VariantEffect.EffectImpact

Modifier and Type	Method	Description
void	VcfEffect.setImpact(VariantEffect.EffectImpact impact)