Uses of Class
de.charite.compbio.jannovar.annotation.VariantEffect

Packages that use VariantEffect

Package	Description
de.charite.compbio.jannovar.annotation

Uses of VariantEffect in de.charite.compbio.jannovar.annotation

Fields in de.charite.compbio.jannovar.annotation with type parameters of type VariantEffect

Modifier and Type	Field and Description
static com.google.common.base.Predicate<VariantEffect>	VariantEffect.IS_INTRONIC Predicate for testing whether a VariantEffect is intronic.
static com.google.common.base.Predicate<VariantEffect>	VariantEffect.IS_SPLICING Predicate for testing whether a VariantEffect is related to splicing.
static com.google.common.base.Function<VariantEffect,String>	VariantEffect.TO_LEGACY_NAME Function for converting from VariantEffect to legacy term.
static com.google.common.base.Function<VariantEffect,String>	VariantEffect.TO_SO_TERM Function for converting from VariantEffect to SO term String.

Methods in de.charite.compbio.jannovar.annotation that return VariantEffect

Modifier and Type	Method and Description
VariantEffect	VariantAnnotations.getHighestImpactEffect() Convenience method.
VariantEffect	Annotation.getMostPathogenicVarType()
VariantEffect	VariantAnnotationsContentDecorator.getVariantType()
static VariantEffect	VariantEffect.valueOf(String name) Returns the enum constant of this type with the specified name.
static VariantEffect[]	VariantEffect.values() Returns an array containing the constants of this enum type, in the order they are declared.

Methods in de.charite.compbio.jannovar.annotation that return types with arguments of type VariantEffect

Modifier and Type	Method and Description
com.google.common.collect.ImmutableSortedSet<VariantEffect>	Annotation.getEffects()

Constructor parameters in de.charite.compbio.jannovar.annotation with type arguments of type VariantEffect

Constructor and Description
Annotation(TranscriptModel transcript, GenomeVariant change, Collection<VariantEffect> effects, AnnotationLocation annoLoc, NucleotideChange genomicNTChange, NucleotideChange cdsNTChange, ProteinChange proteinChange) Initialize the Annotation with the given values.
Annotation(TranscriptModel transcript, GenomeVariant change, Collection<VariantEffect> varTypes, AnnotationLocation annoLoc, NucleotideChange genomicNTChange, NucleotideChange cdsNTChange, ProteinChange proteinChange, Collection<AnnotationMessage> messages) Initialize the Annotation with the given values.