F-Measure [in %] for insertion and deletions identified by all programs on simulation 1. NaN indicates that no insertion or deletion of that size was identified. Insertion and deletion size are shown below each column of the heatmap. The numbers in parentheses indicate the number of simulated reads for each insertion or deletion size. Results for simulation 2 are shown in Additional file 1: Figure S8. Recall and precision values are listed in Additional file 1: Tables S6 and S7.