When TA shifts peaks to fit them into its binning library for a given marker, it tends to make mistakes. Because the size of the shifting is documented, we looked at how incorporating a peak shift threshold (listing genotypes that have a peak shift above the peak shift threshold value as ambiguous) affects the number of miscalls (black line) in the good category as well as the size of the ambiguous category (red line). At peak shift threshold 0.3, the number of miscalls incorporated into the ambiguous category levels off and the ambiguous category expands only moderately. Therefore, peak shift threshold for the ambiguous category was set at 0.3.
