Workflow of the alternative splicing event identification pipeline. A) RNA-seq-derived transcriptome data was aligned using a customized RNA-seq pipeline based on known splicing junctions or Tophat. Cufflinks or Scripture was used for isoform annotation. Based on the data-derived transcript annotation, Alt Event Finder was applied to identify the novel alternative events. B) Strategies of Alt Event Finder for de novo event detection.
Zhou et al. BMC Genomics 2012 13(Suppl 8):S10 doi:10.1186/1471-2164-13-S8-S10