Package org.monarchinitiative.exomiser.core.proto

Interface AlleleProto.ClinVarOrBuilder

All Superinterfaces:
com.google.protobuf.MessageLiteOrBuilder, com.google.protobuf.MessageOrBuilder
All Known Implementing Classes:
AlleleProto.ClinVar, AlleleProto.ClinVar.Builder
Enclosing class:
AlleleProto
public static interface AlleleProto.ClinVarOrBuilder extends com.google.protobuf.MessageOrBuilder

  • Method Details

    • getAlleleId

      @Deprecated String getAlleleId()
      Deprecated.
      string alleleId = 1 [deprecated = true];
      Returns:
      The alleleId.

    • getAlleleIdBytes

      @Deprecated com.google.protobuf.ByteString getAlleleIdBytes()
      Deprecated.
      string alleleId = 1 [deprecated = true];
      Returns:
      The bytes for alleleId.

    • getPrimaryInterpretationValue

      int getPrimaryInterpretationValue()
      .ClinVar.ClinSig primaryInterpretation = 2;
      Returns:
      The enum numeric value on the wire for primaryInterpretation.

    • getPrimaryInterpretation

      AlleleProto.ClinVar.ClinSig getPrimaryInterpretation()
      .ClinVar.ClinSig primaryInterpretation = 2;
      Returns:
      The primaryInterpretation.

    • getSecondaryInterpretationsList

      List<AlleleProto.ClinVar.ClinSig> getSecondaryInterpretationsList()
      repeated .ClinVar.ClinSig secondaryInterpretations = 3;
      Returns:
      A list containing the secondaryInterpretations.

    • getSecondaryInterpretationsCount

      int getSecondaryInterpretationsCount()
      repeated .ClinVar.ClinSig secondaryInterpretations = 3;
      Returns:
      The count of secondaryInterpretations.

    • getSecondaryInterpretations

      AlleleProto.ClinVar.ClinSig getSecondaryInterpretations(int index)
      repeated .ClinVar.ClinSig secondaryInterpretations = 3;
      Parameters:
      index - The index of the element to return.
      Returns:
      The secondaryInterpretations at the given index.

    • getSecondaryInterpretationsValueList

      List<Integer> getSecondaryInterpretationsValueList()
      repeated .ClinVar.ClinSig secondaryInterpretations = 3;
      Returns:
      A list containing the enum numeric values on the wire for secondaryInterpretations.

    • getSecondaryInterpretationsValue

      int getSecondaryInterpretationsValue(int index)
      repeated .ClinVar.ClinSig secondaryInterpretations = 3;
      Parameters:
      index - The index of the value to return.
      Returns:
      The enum numeric value on the wire of secondaryInterpretations at the given index.

    • getReviewStatusValue

      int getReviewStatusValue()
      .ClinVar.ReviewStatus reviewStatus = 4;
      Returns:
      The enum numeric value on the wire for reviewStatus.

    • getReviewStatus

      AlleleProto.ClinVar.ReviewStatus getReviewStatus()
      .ClinVar.ReviewStatus reviewStatus = 4;
      Returns:
      The reviewStatus.

    • getIncludedAllelesCount

      int getIncludedAllelesCount()
      map<string, .ClinVar.ClinSig> includedAlleles = 5;

    • containsIncludedAlleles

      boolean containsIncludedAlleles(String key)
      map<string, .ClinVar.ClinSig> includedAlleles = 5;

    • getIncludedAlleles

      @Deprecated Map<String,AlleleProto.ClinVar.ClinSig> getIncludedAlleles()
      Deprecated.
      Use getIncludedAllelesMap() instead.

    • getIncludedAllelesMap

      Map<String,AlleleProto.ClinVar.ClinSig> getIncludedAllelesMap()
      map<string, .ClinVar.ClinSig> includedAlleles = 5;

    • getIncludedAllelesOrDefault

      AlleleProto.ClinVar.ClinSig getIncludedAllelesOrDefault(String key, AlleleProto.ClinVar.ClinSig defaultValue)
      map<string, .ClinVar.ClinSig> includedAlleles = 5;

    • getIncludedAllelesOrThrow

      AlleleProto.ClinVar.ClinSig getIncludedAllelesOrThrow(String key)
      map<string, .ClinVar.ClinSig> includedAlleles = 5;

    • getIncludedAllelesValue

      @Deprecated Map<String,Integer> getIncludedAllelesValue()
      Deprecated.
      Use getIncludedAllelesValueMap() instead.

    • getIncludedAllelesValueMap

      Map<String,Integer> getIncludedAllelesValueMap()
      map<string, .ClinVar.ClinSig> includedAlleles = 5;

    • getIncludedAllelesValueOrDefault

      int getIncludedAllelesValueOrDefault(String key, int defaultValue)
      map<string, .ClinVar.ClinSig> includedAlleles = 5;

    • getIncludedAllelesValueOrThrow

      int getIncludedAllelesValueOrThrow(String key)
      map<string, .ClinVar.ClinSig> includedAlleles = 5;

    • getVariationId

      String getVariationId()
      string variationId = 6;
      Returns:
      The variationId.

    • getVariationIdBytes

      com.google.protobuf.ByteString getVariationIdBytes()
      string variationId = 6;
      Returns:
      The bytes for variationId.

    • getGeneSymbol

      String getGeneSymbol()
      string gene_symbol = 7;
      Returns:
      The geneSymbol.

    • getGeneSymbolBytes

      com.google.protobuf.ByteString getGeneSymbolBytes()
      string gene_symbol = 7;
      Returns:
      The bytes for geneSymbol.

    • getGeneId

      String getGeneId()
      string gene_id = 8;
      Returns:
      The geneId.

    • getGeneIdBytes

      com.google.protobuf.ByteString getGeneIdBytes()
      string gene_id = 8;
      Returns:
      The bytes for geneId.

    • getVariantEffectValue

      int getVariantEffectValue()
      .VariantEffect variant_effect = 9;
      Returns:
      The enum numeric value on the wire for variantEffect.

    • getVariantEffect

      AlleleProto.VariantEffect getVariantEffect()
      .VariantEffect variant_effect = 9;
      Returns:
      The variantEffect.

    • getHgvsCdna

      String getHgvsCdna()
      string hgvs_cdna = 10;
      Returns:
      The hgvsCdna.

    • getHgvsCdnaBytes

      com.google.protobuf.ByteString getHgvsCdnaBytes()
      string hgvs_cdna = 10;
      Returns:
      The bytes for hgvsCdna.

    • getHgvsProtein

      String getHgvsProtein()
      string hgvs_protein = 11;
      Returns:
      The hgvsProtein.

    • getHgvsProteinBytes

      com.google.protobuf.ByteString getHgvsProteinBytes()
      string hgvs_protein = 11;
      Returns:
      The bytes for hgvsProtein.

    • getClinSigCountsCount

      int getClinSigCountsCount()
      CLNSIGCONF
      map<string, uint32> clin_sig_counts = 12;

    • containsClinSigCounts

      boolean containsClinSigCounts(String key)
      CLNSIGCONF
      map<string, uint32> clin_sig_counts = 12;

    • getClinSigCounts

      @Deprecated Map<String,Integer> getClinSigCounts()
      Deprecated.
      Use getClinSigCountsMap() instead.

    • getClinSigCountsMap

      Map<String,Integer> getClinSigCountsMap()
      CLNSIGCONF
      map<string, uint32> clin_sig_counts = 12;

    • getClinSigCountsOrDefault

      int getClinSigCountsOrDefault(String key, int defaultValue)
      CLNSIGCONF
      map<string, uint32> clin_sig_counts = 12;

    • getClinSigCountsOrThrow

      int getClinSigCountsOrThrow(String key)
      CLNSIGCONF
      map<string, uint32> clin_sig_counts = 12;