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)])
Example #2
0
 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"])
Example #4
0
 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"])