Uses of Class
org.snpeff.snpEffect.VariantEffect.ErrorWarningType
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Packages that use VariantEffect.ErrorWarningType Package Description org.snpeff.interval org.snpeff.snpEffect org.snpeff.snpEffect.testCases.integration -
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Uses of VariantEffect.ErrorWarningType in org.snpeff.interval
Methods in org.snpeff.interval that return VariantEffect.ErrorWarningType Modifier and Type Method Description VariantEffect.ErrorWarningType
Exon. sanityCheck(Variant variant)
Check that the base in the exon corresponds with the one in the SNPVariantEffect.ErrorWarningType
Transcript. sanityCheck(Variant variant)
Perfom some baseic chekcs, return error type, if any -
Uses of VariantEffect.ErrorWarningType in org.snpeff.snpEffect
Methods in org.snpeff.snpEffect that return VariantEffect.ErrorWarningType Modifier and Type Method Description static VariantEffect.ErrorWarningType
VariantEffect.ErrorWarningType. valueOf(java.lang.String name)
Returns the enum constant of this type with the specified name.static VariantEffect.ErrorWarningType[]
VariantEffect.ErrorWarningType. 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.ErrorWarningType Modifier and Type Method Description void
VariantEffect. addErrorMessage(VariantEffect.ErrorWarningType errmsg)
void
VariantEffects. addErrorWarning(Variant variant, VariantEffect.ErrorWarningType errwarn)
void
VariantEffect. addErrorWarningInfo(VariantEffect.ErrorWarningType errwarn)
Add an error or warningvoid
VariantEffect. addInfoMessage(VariantEffect.ErrorWarningType infomsg)
void
VariantEffect. addWarningMessge(VariantEffect.ErrorWarningType warnmsg)
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Uses of VariantEffect.ErrorWarningType in org.snpeff.snpEffect.testCases.integration
Methods in org.snpeff.snpEffect.testCases.integration with parameters of type VariantEffect.ErrorWarningType Modifier and Type Method Description void
TestCasesIntegrationBase. checkTranscriptError(java.lang.String[] args, VariantEffect.ErrorWarningType warningType)
Run a predictor and check if the expected warnings appear
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