Fig. 8
From: ASGAL: aligning RNA-Seq data to a splicing graph to detect novel alternative splicing events
Example of false intron retention. The figure depicts a splicing graph \(\mathcal {S}^{\star }_{G}\), a transcript T, and the alignments of a sample of reads from T. In this case, the transcript T shows a complex AS event w.r.t. the annotation of the splicing graph \(\mathcal {S}_{G}^{\star }\) consisting of two new exons. ASGAL finds the new intron supported by the red alignments, but the analysis of the neighboring introns shows that no simple AS event can explain the alignments: this situation is recognized by ASGAL that refuses to make any prediction of a novel (surely incorrect) intron retention event