SplicePie contains three major analysis steps: analyzing the order of splicing per sample, looking for recursive splicing events per sample and summarizing predicted recursive splicing events for all analyzed sample (it is recommended to use more samples for higher reliability). The first two steps are performed individually on each sample and the last step looks at the overlap in all samples. However, the analysis can be run on one sample as well.
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SplicePie: a novel analytical approach for the detection of alternative, non-sequential and recursive splicing.
Pulyakhina I, Gazzoli I, Hoen PB, Verwey N, den Dunnen J, Aartsma-Rus A, Laros J.
Nucleic Acids Res. 2015 Mar 23. pii: gkv242.