Figure 2

Effect of different thresholds on SV identification. Different sets of indels are called at combinations of different values for thresholds t_r, t_n, and t_c. Each bar shows the percentages of the true positives, the false negatives, and the false positives of each call set, which are represented by the colored, the white, and the gray portions, respectively. The bars in different shades of green and red are used for the true positive calls of deletion and insertion of different length. (A-B) The alignment score ratio threshold, t_r. SV are calls for a set of simulated reads using different t_r while t_n = 5 and t_c = 0.1 are kept unchanged. (C-D) The number of supportive read threshold, t_n. SV are calls for the same set of simulated reads using different t_n while t_r = 1 and t_c = 0.1 are kept unchanged. (E-F) The maximum centeredness threshold, t_c. SV are calls for the same set of simulated reads using different t_c while t_n = 5 and t_r = 1 are kept unchanged.