AnnotateVcfDbTabix (SnpSift 5.4 API)

java.lang.Object

org.snpsift.annotate.AnnotateVcfDb

org.snpsift.annotate.AnnotateVcfDbTabix

public class AnnotateVcfDbTabix extends AnnotateVcfDb

Annotate using a tabix indexed VCF "database"

Author:: pcingola

Field Summary

Fields inherited from class AnnotateVcfDb
annotateEmpty, chrPrev, dbVcf, debug, errCount, existsInfoField, hasVcfInfoPerAlleleRef, infoFields, MAX_ERRORS, prependInfoFieldName, useAllInfoFields, useId, useInfoFields, useRefAlt, vcfDbFile, vcfInfoPerAllele, vcfInfoPerAlleleRef, verbose
Constructor Summary

Constructors

Constructor

Description

AnnotateVcfDbTabix(String dbFileName)
Method Summary

Methods inherited from class AnnotateVcfDb
annotate, annotateExists, annotateIds, annotateInfo, close, discoverInfoFields, discoverInfoFields, find, find, findDbExists, findDbId, findDbInfo, findDbInfo, findDbInfoAlt, findDbInfoRef, match, open, prependInfoName, query, setAnnotateEmpty, setDebug, setExistsInfoField, setInfoFields, setPrependInfoFieldName, setUseId, setUseRefAlt, setVerbose, toString, uniqueIds, warn

Methods inherited from class Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Details
- AnnotateVcfDbTabix
  
  public AnnotateVcfDbTabix(String dbFileName)