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

Sound like you rather want to do is a sashimi plot - see fx the IGV plugin then using spliceR