Figure 1

Method overview. Five types of alternative splicing events are detected by SplAdder. For each event, two alternative splice isoforms are considered. Bisbee takes the read counts supporting each isoform in each sample and performs differential splicing or outlier analysis. As illustrated in the volcano plot on the left, Bisbee Diff is able to detect high coverage events with subtle differences in percent spliced in (PSI) as well as low coverage events with large differences in PSI. As illustrated in the center plot, the Bisbee outlier test also takes into account the differences in PSI and the coverage of the event. Each dot represents a sample, with tumors on the left and normal tissues on the right. The samples are sorted by outlier score within each set on the x-axis, the PSI is plotted on the y-axis, and the color represents the depth of coverage of the event in the sample. The dots within the grey stripe pass the outlier score threshold. Bisbee also annotates protein-level effects and as can be seen in the example output on the right.