public final class DBSNPRecord extends Object
Constructor and Description |
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DBSNPRecord(String chrom,
int pos,
String id,
String ref,
Collection<String> alt,
Collection<String> filter,
int rsID,
int rsPos,
boolean reversed,
DBSNPVariantProperty variantProperty,
Collection<DBSNPGeneInfo> geneInfos,
int dbSNPBuildID,
DBSNPVariantAlleleOrigin variantAlleleOrigin,
Collection<DBSNPVariantSuspectReasonCode> variantSuspectReasonCode,
int weights,
String variationClass,
boolean precious,
boolean thirdPartyAnnotation,
boolean pubMedCentral,
boolean threeDStructure,
boolean submitterLinkOut,
boolean nonSynonymousFrameShift,
boolean nonSynonymousMissense,
boolean nonSynonymousNonsense,
boolean reference,
boolean synonymous,
boolean inThreePrimeUTR,
boolean inFivePrimeUTR,
boolean inAcceptor,
boolean inDonor,
boolean inIntron,
boolean inThreePrime,
boolean inFivePrime,
boolean otherVariant,
boolean assemblyConflict,
boolean assemblySpecific,
boolean mutation,
boolean validated,
boolean fivePercentAll,
boolean fivePersonOne,
boolean highDensityGenotyping,
boolean genotypesAvailable,
boolean g1kPhase1,
boolean g1kPhase3,
boolean clinicalDiagnosticAssay,
boolean locusSpecificDatabase,
boolean microattributionThirdParty,
boolean hasOMIMOrOMIA,
boolean contigAlelleNotVariant,
boolean withdrawn,
boolean nonOverlappingAlleleSet,
Collection<Double> alleleFrequenciesG1K,
boolean common,
Collection<String> oldVariants) |
public DBSNPRecord(String chrom, int pos, String id, String ref, Collection<String> alt, Collection<String> filter, int rsID, int rsPos, boolean reversed, DBSNPVariantProperty variantProperty, Collection<DBSNPGeneInfo> geneInfos, int dbSNPBuildID, DBSNPVariantAlleleOrigin variantAlleleOrigin, Collection<DBSNPVariantSuspectReasonCode> variantSuspectReasonCode, int weights, String variationClass, boolean precious, boolean thirdPartyAnnotation, boolean pubMedCentral, boolean threeDStructure, boolean submitterLinkOut, boolean nonSynonymousFrameShift, boolean nonSynonymousMissense, boolean nonSynonymousNonsense, boolean reference, boolean synonymous, boolean inThreePrimeUTR, boolean inFivePrimeUTR, boolean inAcceptor, boolean inDonor, boolean inIntron, boolean inThreePrime, boolean inFivePrime, boolean otherVariant, boolean assemblyConflict, boolean assemblySpecific, boolean mutation, boolean validated, boolean fivePercentAll, boolean fivePersonOne, boolean highDensityGenotyping, boolean genotypesAvailable, boolean g1kPhase1, boolean g1kPhase3, boolean clinicalDiagnosticAssay, boolean locusSpecificDatabase, boolean microattributionThirdParty, boolean hasOMIMOrOMIA, boolean contigAlelleNotVariant, boolean withdrawn, boolean nonOverlappingAlleleSet, Collection<Double> alleleFrequenciesG1K, boolean common, Collection<String> oldVariants)
public String getChrom()
public int getPos()
public String getId()
public String getRef()
public com.google.common.collect.ImmutableList<String> getAlt()
public com.google.common.collect.ImmutableList<String> getFilter()
public int getRsID()
public int getRsPos()
public boolean isReversed()
public DBSNPVariantProperty getVariantProperty()
public com.google.common.collect.ImmutableList<DBSNPGeneInfo> getGeneInfos()
public int getDbSNPBuildID()
public DBSNPVariantAlleleOrigin getVariantAlleleOrigin()
public com.google.common.collect.ImmutableSet<DBSNPVariantSuspectReasonCode> getVariantSuspectReasonCode()
public int getWeights()
public String getVariationClass()
public boolean isPrecious()
public boolean isThirdPartyAnnotation()
public boolean isPubMedCentral()
public boolean isThreeDStructure()
public boolean isSubmitterLinkOut()
public boolean isNonSynonymousFrameShift()
public boolean isNonSynonymousMissense()
public boolean isNonSynonymousNonsense()
public boolean isReference()
public boolean isSynonymous()
public boolean isInThreePrimeUTR()
public boolean isInFivePrimeUTR()
public boolean isInAcceptor()
public boolean isInDonor()
public boolean isInIntron()
public boolean isInThreePrime()
public boolean isInFivePrime()
public boolean isOtherVariant()
public boolean isAssemblyConflict()
public boolean isAssemblySpecific()
public boolean isMutation()
public boolean isValidated()
public boolean isFivePercentAll()
public boolean isFivePercentOne()
public boolean isHighDensityGenotyping()
public boolean isGenotypesAvailable()
public boolean isG1kPhase1()
public boolean isG1kPhase3()
public boolean isClinicalDiagnosticAssay()
public boolean isLocusSpecificDatabase()
public boolean isMicroattributionThirdParty()
public boolean isHasOMIMOrOMIA()
public boolean isContigAlelleNotVariant()
public boolean isWithdrawn()
public boolean isNonOverlappingAlleleSet()
public com.google.common.collect.ImmutableList<Double> getAlleleFrequenciesG1K()
public boolean isCommon()
public com.google.common.collect.ImmutableList<String> getOldVariants()
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