Scatter plot. The panel shows the scatter plots of the A-C and G-T pairs, constructed from the raw data alone. The y axis and the x axis in the left panel represent the C and A channels respectively. Similarly, the y and the x axes in the right panel denotes the T and G channels. The top panel consists of smoothed density plots of A intensities versus C intensities, and G intensities versus T intensities. The four colors in the figures of the bottom panel represent the estimated base calls from the proposed BM-BC method: black- A, red - C-green G, blue-T. The intensity values shown in the figure are normalized by subtracting from the overall minimum intensity and then dividing by the standard deviation.
Ji et al. BMC Bioinformatics 2012 13(Suppl 13):S6 doi:10.1186/1471-2105-13-S13-S6