Examples of PerReadAlleleLikelihoodMap

Examples of org.broadinstitute.gatk.utils.genotyper.PerReadAlleleLikelihoodMap

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            return vc.getGenotypes();

        final GenotypesContext genotypes = GenotypesContext.create(vc.getNSamples());
        for ( final Genotype genotype : vc.getGenotypes() ) {
            AlignmentContext context = null;
            PerReadAlleleLikelihoodMap perReadAlleleLikelihoodMap = null;
            if (stratifiedContexts != null)
                context = stratifiedContexts.get(genotype.getSampleName());
            if (stratifiedPerReadAlleleLikelihoodMap != null)
                perReadAlleleLikelihoodMap = stratifiedPerReadAlleleLikelihoodMap.get(genotype.getSampleName());
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