Package org.broadinstitute.hellbender.utils.variant
package org.broadinstitute.hellbender.utils.variant
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ClassDescriptionUtility class to use with DbSnp files to determine is a locus is a dbSnp site.Little tuple class to contain one bitset for SNPs and another for Indels.Enum to hold the possible types of dbSnps.Variant is (currently) a minimal variant interface needed by the Hellbender pipeline.This class contains any constants (primarily FORMAT/INFO keys) in VCF files used by the GATK.This class contains the
VCFHeaderLinedefinitions for the annotation keys inGATKVCFConstants.Choose the Tribble indexing strategyHomo sapiens genome constants.MinimalVariant is a minimal implementation of theGATKVariantinterface.VariantContextVariantAdapter wraps the existing htsjdk VariantContext class so it can be used with theGATKVariantAPI.Utils for dealing with VCF files.