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Searched refs:BQSR_BASE_DELETION_QUALITIES (Results 1 – 2 of 2) sorted by relevance

/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/utils/read/
H A DReadUtils.java47 …public static final String BQSR_BASE_DELETION_QUALITIES = "BD"; // base qualities … field in ReadUtils
806 …read.setAttribute(BQSR_BASE_DELETION_QUALITIES, quals == null ? null : SAMUtils.phredToFastq(quals… in setDeletionBaseQualities()
813 …ead.hasAttribute(BQSR_BASE_INSERTION_QUALITIES) || read.hasAttribute(BQSR_BASE_DELETION_QUALITIES); in hasBaseIndelQualities()
827 return SAMUtils.fastqToPhred( read.getAttributeAsString(BQSR_BASE_DELETION_QUALITIES)); in getExistingBaseDeletionQualities()
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/transformers/
H A DBQSRReadTransformer.java149 read.clearAttribute(ReadUtils.BQSR_BASE_DELETION_QUALITIES); in apply()