Package org.snpsift.annotate
Class AnnotateVcfDbMem
java.lang.Object
org.snpsift.annotate.AnnotateVcfDb
org.snpsift.annotate.AnnotateVcfDbMem
Annotate using a VCF "database"
Note: Reads and loads the whole VCF file into memory
- Author:
- pcingola
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Field Summary
Fields inherited from class org.snpsift.annotate.AnnotateVcfDb
annotateEmpty, chrPrev, dbVcf, debug, errCount, existsInfoField, hasVcfInfoPerAlleleRef, infoFields, MAX_ERRORS, prependInfoFieldName, useAllInfoFields, useId, useInfoFields, useRefAlt, vcfDbFile, vcfInfoPerAllele, vcfInfoPerAlleleRef, verbose
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Constructor Summary
Constructors -
Method Summary
Methods inherited from class org.snpsift.annotate.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
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Constructor Details
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AnnotateVcfDbMem
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