breast cancer genome. To simulate the thresholding, we set p(SNVi)=0 at locations where Ni was below some threshold, chosen from the set {0, 1,…, 7, 10}. We compared SNVMix1, SNVMix2 and Maq on this data as well. Finally, we evaluated the true positive rate (TPR) and false positive rate (FPR) on the 497 ground truth positions from this case for SNVMix1, SNVMix2 and Maq.
