Package htsjdk.variant.variantcontext

Examples of htsjdk.variant.variantcontext.GenotypeBuilder.attribute()


        // create the single Genotype with GQ and DP annotations
        final GenotypeBuilder gb = new GenotypeBuilder(sampleName, GATKVariantContextUtils.homozygousAlleleList(block.getRef(),block.getPloidy()));
        gb.noAD().noPL().noAttributes(); // clear all attributes
        gb.GQ(block.getMedianGQ());
        gb.DP(block.getMedianDP());
        gb.attribute(MIN_DP_FORMAT_FIELD, block.getMinDP());
        gb.PL(block.getMinPLs());

        // This annotation is no longer standard
        //gb.attribute(MIN_GQ_FORMAT_FIELD, block.getMinGQ());
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