Package org.broadinstitute.hellbender.tools.walkers.vqsr.scalable
package org.broadinstitute.hellbender.tools.walkers.vqsr.scalable
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ClassesClassDescriptionExtracts site-level variant annotations, labels, and other metadata from a VCF file to HDF5 files.Base walker for both
ExtractVariantAnnotationsandScoreVariantAnnotations, which enforces identical variant-extraction behavior in both tools viaLabeledVariantAnnotationsWalker.extractVariantMetadata(htsjdk.variant.variantcontext.VariantContext, org.broadinstitute.hellbender.engine.FeatureContext, boolean).Scores variant calls in a VCF file based on site-level annotations using a previously trained model.Trains a model for scoring variant calls based on site-level annotations.