rnaseqc and rseqc have opposing results when running on stranded data.
The issue seem to be coming from rna-seqc: we need to understand what 'fr' and 'rf' specify exactly. as of now the pipeline runs rf for the reverse and fr for the forward stranded protocols
rnaseqc and rseqc have opposing results when running on stranded data. The issue seem to be coming from rna-seqc: we need to understand what 'fr' and 'rf' specify exactly. as of now the pipeline runs rf for the reverse and fr for the forward stranded protocols