def buildLncRNAGeneSet(infiles, outfile): ''' build lncRNA gene set. This is a set of transcripts in the abinitio set that do not overlap at any protein coding or pseudogene transcripts or additional biotypes from ensembl that are unwanted (exons) in a reference gene set. Transcripts need to have a length of at least 200 bp. ''' PipelineLncRNA.buildLncRNAGeneSet( infiles[0], infiles[1], infiles[2], infiles[3], infiles[4], outfile, PARAMS["lncrna_min_length"] )
def buildLncRNAGeneSet(infiles, outfile): ''' build lncRNA gene set. This is a set of transcripts in the abinitio set that do not overlap at any protein coding or pseudogene transcripts or additional biotypes from ensembl that are unwanted (exons) in a reference gene set. Transcripts need to have a length of at least 200 bp. ''' PipelineLncRNA.buildLncRNAGeneSet(infiles[0], infiles[1], infiles[2], infiles[3], infiles[4], outfile, PARAMS["lncrna_min_length"])