Hello All,

I have been trying to trim rna-seq reads (1D^2) from Oxford nanopore technology for adaptors.

I tried using cutadapt which trimmed only 2% of reads. (1D and 1D^2) However, porechop trimmed ~95% 1D and ~60% 1d^2.

I am unable to understand why there is such a huge difference?

Any help is greatly appreciated. TIA