public final class DBSNPAnnotationDriver extends AbstractDBAnnotationDriver<DBSNPRecord>
Constructor and Description |
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DBSNPAnnotationDriver(String vcfPath,
String fastaPath,
DBAnnotationOptions options)
Create annotation driver for a coordinate-sorted, bgzip-compressed, dbSNP VCF file
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Modifier and Type | Method and Description |
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VCFHeaderExtender |
constructVCFHeaderExtender() |
DBSNPInfo |
getDbSNPInfo() |
annotateVariantContext
public DBSNPAnnotationDriver(String vcfPath, String fastaPath, DBAnnotationOptions options) throws JannovarVarDBException
fastaPath
- FAI-indexed FASTA file with referencevcfPath
- Path to VCF file with dbSNP.JannovarVarDBException
- on problems loading the reference FASTA/FAI file or incompatible dbSNP versionpublic DBSNPInfo getDbSNPInfo()
public VCFHeaderExtender constructVCFHeaderExtender()
VCFHeaderExtender
to use.Copyright © 2016. All rights reserved.