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Effect of alignment and base quality recalibration on sensitivity and FPR. Sensitivity in detecting SNVs (a, c) or indels (b, d) in our dilution series using Mutect2 (a, b) or Strelka (c, d) and each of four different alignment pipelines. e, f FPR/Mb in SNV (e) or indel (f) calling as a function of the alignment pipeline and mutation caller used
