Fig. 6.

Systematic analysis of IRs detected by only IRFinder (IRFinder-specific) or iREAD (iREAD-specific) in the mouse data. We matched IRFinder-specific IRs to the introns used in iREAD and obtained their expression values in terms of FPKM; specifically, the IRFinder-specific introns overlapping with exons are not considered because iREAD does not consider them. We also matched iREAD-specific IRs to the introns used in IRFinder and obtained their IRratio values. IRFinder-specific IRs (with relatively higher IRratio) show generally lower expression than the retained introns detected by iREAD at default settings. iREAD-specific IRs (with relatively higher expression) show generally lower IRratio values than the retained introns detected by IRFinder at default settings. The shared IRs of the two methods have high IRratio and high expression