Hi everyone !
I have a small question about the trim galore report.
I ran my command on 100bp paired RNA-seq data :
trim_galore --dont_gzip --stringency 1 --fastqc --length 15 --paired -o [output] [input_R1] [input_R2]
The report gives me this information :
R1 :
Total reads processed: 28,073,466 Reads with adapters: 17,138,946 (61.1%) Reads written (passing filters): 28,073,466 (100.0%)
R2 :
Total reads processed: 28,073,466 Reads with adapters: 17,165,013 (61.1%) Reads written (passing filters): 28,073,466 (100.0%)
But the problem is that in my fastqc report I don't have as many adapters, a little over 30% for R1 and for R2.
Does trim galore sum R1 and R2 in its report?
Thank you very much for your help!
