When working with RNA-seq data, several tools exist to quantify differences in splicing across conditions and to address the significance of those changes (e.g. DEXSeq, MMDIFF). These tools often produce a long list of genes that is difficult to interpret. By relying on transcript level quantifications, SwitchSeq provides a simple yet powerful approach to identify, annotate and visualise the most extreme changes in splicing across two different conditions, namely switch events. In short, switch events are defined as those cases where, for a given gene, the identity of the most abundant transcript changes across conditions.
- Validated 4/5/2018