RSVP is a software package for prediction of alternative isoforms of protein-coding genes, based on both genomic DNA evidence and aligned RNA-seq reads. The method is based on the use of ORF graphs, which are more general than the splice graphs used in traditional transcript assembly.
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Improved transcript isoform discovery using ORF graphs.
Majoros WH, Lebeck N, Ohler U, Li S.
Bioinformatics. 2014 Apr 21.