Have you looked at the SpliceR vignette ? They show how to make Venn diagrams to analyse results.
After running spliceR(), annotating the spliceRlist object with
information about alterna- tive splicing events. the spliceRPlot()
function can be used for initial data exploration. spliceRPlot()
generates a range of Venn diagrams, with one circle per condition,
analyzing different aspects of the data.
They also explain how to generate a GTF file to visualize the transcript models in a genome browser :
After running assembly with cufflinks or another assembler, and
perhaps spliceR() and/or annotatePTC(), visualization of trancripts in
genome browsers is often helpful. To facilitate this, spliceR provides
the generateGTF function