def buildFilteredLncRNAGeneSet(infiles, outfile):
"""
Creates a filtered lncRNA geneset.
This geneset will not include any single exon lncRNA
unless it has been seen previously i.e. it overlaps
a previously identified lncRNA
"""
PipelineLncRNA.buildFilteredLncRNAGeneSet(infiles[0], outfile, infiles[1 : len(infiles)])
def buildFilteredLncRNAGeneSet(infiles, outfile):
'''
Creates a filtered lncRNA geneset.
This geneset will not include any single exon lncRNA
unless it has been seen previously i.e. it overlaps
a previously identified lncRNA
'''
PipelineLncRNA.buildFilteredLncRNAGeneSet(infiles[0], outfile,
infiles[1:len(infiles)])
def buildFilteredLncRNAGeneSet(infiles, outfile):
'''
Creates a filtered lncRNA geneset. That contains previously identified
gene models supplied in contig file.
'''
assert PARAMS["filtering_remove_single_exon"] in ["loci",
"transcripts",
None]
PipelineLncRNA.buildFilteredLncRNAGeneSet(
infiles[0],
outfile,
infiles[1:len(infiles)],
filter_se=PARAMS["filtering_remove_single_exon"])
def buildFilteredLncRNAGeneSet(infiles, outfile):
'''
Creates a filtered lncRNA geneset. That contains previously identified
gene models supplied in contig file.
'''
assert PARAMS["filtering_remove_single_exon"] in [
"loci", "transcripts", None
]
PipelineLncRNA.buildFilteredLncRNAGeneSet(
infiles[0],
outfile,
infiles[1:len(infiles)],
filter_se=PARAMS["filtering_remove_single_exon"])