Figure 3

Robustness to bad quality chips. Accuracy is plotted against confidence thresholds for various datasets. In other words, the data in Figure 1 are plotted again except that the confidence measures used previously to achieve specified drop rates are now placed on the x-axis. Results of all HapMap datasets are shown from (a) BRLMM and (b) CRLMM. (c) Accuracy versus confidence plots (ACPs) are made for BRLMM (purple) and CRLMM (orange). The points are further stratified by call type according to the HapMap gold standard. The STY and NSP are the array types described in the text. Hmz and Htz are abbreviations for homozygous and heterozygous, respectively.