Parses the gene transfer file (GTF) for downstream nonsense-mediated decay (NMD) prediction.
Usage
ParseGTF(MarvelObject)
Value
An object of class S3 with new slot MarvelObject$NMD$GTF.
Arguments
MarvelObject
Marvel object. S3 object generated from CompareValues.PSI function.
Details
This function parses the GTF in order to generate new columns for gene IDs, transcript IDs, and transcript type. These information are extracted from the attribute (9th) column for a standard GTF. These information will be used for downstream NMD prediction.