Beta distributions model inclusion level differences across sequential groups. (A) Scatterplot comparing betAS’ median “generalized” differences between groups, that is, the median of differences found between groups and the effect size (ΔPSIbetAS) between the extremes of the time line (development days 28—neurons—to −8—ESC). Points are colored based on the estimated monotonicity coefficient (see Supplemental Methods) and shaped based on the F-statistic as the median of absolute differences between groups divided by the median of absolute differences within groups. Highlighted points are associated with the selected example AS events in panels C–F. (B) Volcano plot comparing betAS’ median “generalized” differences between groups and the estimated probability that absolute differences between groups are greater than those within groups. Points are colored based on the estimated F-statistic as the median of absolute differences between groups divided by the median of absolute differences within groups. Highlighted points are associated with the selected examples in panels C–F. (C–F, left) Density plots of the PSI differences between sequential groups (orange) in the time line with rug plots (top) indicating the identified modes, with dashed vertical black line indicative of 0. (Middle) Density plots of the absolute “generalized” (red), sequential (orange), and within (gray) groups differences in PSIs, with vertical lines indicative of the median values of each distribution. (Right) Beta distributions (violin plots of the emitted values, with point indicating the mean of each distribution) for selected events, identified by vast-tools’ IDs (VAST-DB annotation for the mouse mm10 genome assembly): (C) MmuEX0045617 (gene Stxbp1, chr2:32794588–32794713), (D) MmuEX0026784 (gene Lrch2, chrX:147484754–147484804), (E) MmuEX0024060 (gene Ilf3, chr9:21388112–21388150), (F) MmuEX0016666 (gene Elavl2, chr4:91254141–91254179).
