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Identification of the overrepresented haplotype. Solid lines indicate the accuracy of hapLOH's haplotype calls at deletions (orange) and cn-LOH (green) in the curated data set at various tumor proportions. Dotted lines indicate accuracy of the naive BAF-based calls. Accuracy was calculated as the proportion of correct calls at sites where we could confidently call LOH using the BAFs from the 100% tumor sample—about 18,000 markers for deletions and 8000 markers for cn-LOH.
