I have a single end RNAseq data and would like to understand the strandedness of the data.
From wet-lab input I know "Stranded cDNA library was generated by reverse transcribing the RNA molecules".
infer-experiment-pyThe output is:
This is SingleEnd Data Fraction of reads failed to determine: 0.0795 Fraction of reads explained by "++,--": 0.0703 Fraction of reads explained by "+-,-+": 0.8502
So it's stranded but is it forward or reverse? I do not understand the help given here:
Does it means that its reverse stranded and I have to use s -2 option in featureCounts, "reverse" strandedness in htseq, --rf in StringTie?