RNAcode

[…] mrna annotation. we discarded annotated gencode-v19 pseudogene transcripts. to remove potential protein/peptide-coding transcripts, we estimated transcript protein-coding capability using rnacode [60] and cpc [61]. we adjusted the criteria for the output of the protein-coding potential estimation pipeline (rnacode score <18, cpc score <1.6) by analyzing well-known lncrnas […]

[…] transcripts, we estimated transcript protein-coding capability using rnacode [60] and cpc [61]. we adjusted the criteria for the output of the protein-coding potential estimation pipeline (rnacode score <18, cpc score <1.6) by analyzing well-known lncrnas (additional file 2d). we validated these criteria by applying the pipeline to the above public annotations; this identified […]