Uses of Package
org.snpeff.snpEffect
-
Classes in org.snpeff.snpEffect used by org.snpeff Class Description Config -
Classes in org.snpeff.snpEffect used by org.snpeff.akka.vcf Class Description Config -
Classes in org.snpeff.snpEffect used by org.snpeff.binseq Class Description Config -
Classes in org.snpeff.snpEffect used by org.snpeff.coverage Class Description SnpEffectPredictor Predicts effects of SNPs Note: Actually tries to predict any kind of SeqChange, not only SNPs . -
Classes in org.snpeff.snpEffect used by org.snpeff.filter Class Description EffectType Effect type: Note that effects are sorted (declared) by impact (highest to lowest putative impact).VariantEffect Effect of a variant. -
Classes in org.snpeff.snpEffect used by org.snpeff.interval Class Description EffectType Effect type: Note that effects are sorted (declared) by impact (highest to lowest putative impact).VariantEffect Effect of a variant.VariantEffect.ErrorWarningType Errors for change effectVariantEffects A sorted collection of variant effects -
Classes in org.snpeff.snpEffect used by org.snpeff.interval.codonChange Class Description EffectType Effect type: Note that effects are sorted (declared) by impact (highest to lowest putative impact).VariantEffect Effect of a variant.VariantEffect.EffectImpact VariantEffects A sorted collection of variant effects -
Classes in org.snpeff.snpEffect used by org.snpeff.motif Class Description EffectType Effect type: Note that effects are sorted (declared) by impact (highest to lowest putative impact). -
Classes in org.snpeff.snpEffect used by org.snpeff.nextProt Class Description Config -
Classes in org.snpeff.snpEffect used by org.snpeff.outputFormatter Class Description Config VariantEffect Effect of a variant. -
Classes in org.snpeff.snpEffect used by org.snpeff.snpEffect Class Description Config EffectType Effect type: Note that effects are sorted (declared) by impact (highest to lowest putative impact).Hgvs HGSV notation References: http://www.hgvs.org/SnpEffectPredictor Predicts effects of SNPs Note: Actually tries to predict any kind of SeqChange, not only SNPs .VariantEffect Effect of a variant.VariantEffect.Coding VariantEffect.EffectImpact VariantEffect.ErrorWarningType Errors for change effectVariantEffect.FunctionalClass This class is only getFused for SNPsVariantEffects A sorted collection of variant effectsVariantEffectStructural Effect of a structural variant affecting multiple genesVcfAnnotator Annotate a VCF file: E.g. -
Classes in org.snpeff.snpEffect used by org.snpeff.snpEffect.commandLine Class Description Config VcfAnnotator Annotate a VCF file: E.g. -
Classes in org.snpeff.snpEffect used by org.snpeff.snpEffect.commandLine.eff Class Description SnpEffectPredictor Predicts effects of SNPs Note: Actually tries to predict any kind of SeqChange, not only SNPs . -
Classes in org.snpeff.snpEffect used by org.snpeff.snpEffect.factory Class Description Config SnpEffectPredictor Predicts effects of SNPs Note: Actually tries to predict any kind of SeqChange, not only SNPs . -
Classes in org.snpeff.snpEffect used by org.snpeff.snpEffect.testCases.integration Class Description Config SnpEffectPredictor Predicts effects of SNPs Note: Actually tries to predict any kind of SeqChange, not only SNPs .VariantEffect.ErrorWarningType Errors for change effect -
Classes in org.snpeff.snpEffect used by org.snpeff.snpEffect.testCases.unity Class Description Config EffectType Effect type: Note that effects are sorted (declared) by impact (highest to lowest putative impact).SnpEffectPredictor Predicts effects of SNPs Note: Actually tries to predict any kind of SeqChange, not only SNPs .VariantEffect.EffectImpact -
Classes in org.snpeff.snpEffect used by org.snpeff.spliceSites Class Description Config -
Classes in org.snpeff.snpEffect used by org.snpeff.stats Class Description SnpEffectPredictor Predicts effects of SNPs Note: Actually tries to predict any kind of SeqChange, not only SNPs .VariantEffect Effect of a variant. -
Classes in org.snpeff.snpEffect used by org.snpeff.svg Class Description SnpEffectPredictor Predicts effects of SNPs Note: Actually tries to predict any kind of SeqChange, not only SNPs . -
Classes in org.snpeff.snpEffect used by org.snpeff.vcf Class Description EffectType Effect type: Note that effects are sorted (declared) by impact (highest to lowest putative impact).VariantEffect Effect of a variant.VariantEffect.Coding VariantEffect.EffectImpact VariantEffect.FunctionalClass This class is only getFused for SNPs