jwdebelius
December 7, 2023, 2:38pm
2
Hi @c_malossi ,
I'm assuming you're doing 515F-806R 2x150 sequencing?
It's pretty widely accepted to just use forward reads for this purpose, so no need to modify the trim length. Here's a more detailed forum post on the issue:
Hi all,
Running into a weird problem I’m helping to trouble shoot. We have a run which may have some technical issues, which we are re-running, but wanted to see if we could use only the forward reads to de-multiplex and annotate.
Essentially, the forward and reverse runs are in fastq files and the barcode is in another fastq files. I realized that since the barcode is not in the sequence itself it is not useful if I use cutadapt. The forward read/reverse read fastq/barcode fastq have been per…
Best,
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