ggavelis/infer_splice_variants_from_Trinity

Did you know that Trinity predicts splice variants? (Chrysalis works even for de novo transcriptomes, and its input--though heuristic--is valuable). Likewise, TransDecoder can predict multiple ORFs per protein--potentially capturing alternative splicing. These predictions are usually lost once we rename our proteins to shorter seqids. This script stores and abbreviates potential splicing info for later use--e.g. for discerning prokaryotic from eukaryotic transcripts.

Python