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"])
