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MMR results on simulated read data: quantification results on 7 million simulated 51 nt reads aligned with TopHat2, using rQuant and Cufflinks. Accuracy was measured as Spearman correlation to ground truth. Unfiltered read sets are shown in dark, best-hit read sets in medium and MMR-filtered in light gray. Native error rate is 0.9%, noise levels 1–3%
