chemistry since the initial GAII run as well as faster cycling time. This resulted in a more than six-fold reduction in the number of positions determined as significantly noisy by filter 7 (Figure S8e in Additional file 1). As a result, the sensitivity of the assay improved from 85% (Figure 1e) to approximately 90% (Figure S8f in Additional file 1) when comparing the GAII and MiSeq data at equivalent coverage depth. The PPV remains very high, witnessing to the robustness of the initial statistical analysis strategy.
