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. 2011 Nov 24;52(12):9053–9060. doi: 10.1167/iovs.11-7978

Figure 1.

Figure 1.

Average call rates and average accuracies with different GSEQ parameter settings. Average call rate (red) represents total bases called (excluding no calls)/total bases interrogated by array across the board; average accuracy (blue) represents correct base calls/total bases called (excluding no calls) across the board. QST, quality score threshold; BRT, base reliability threshold across samples. Different settings of QST and BRT in the GSEQ data analysis affected the average base call rate and average accuracy. The average base call rate and average accuracy of the Retina-Array ranged from 95.79% and 97.15% under the settings of QST at 0 and BRT at 0 to 46.77% and 99.97% under the settings of QST at 12 and BRT at 0.5. The default settings of QST at 3 and BRT at 0.5 gave an average call rate of 84.65%, and an average accuracy of 99.66% was used in the subsequent post-GSEQ data analysis.