Hey guys,
So I'm working with pair-end data and I'm concerning regarding the merged/not-merged reads. I'm currently merging them using PEAR and QIIME 2, but I would not like to discard those not merged reads. Should I treat them as "single-end"-like reads? Or it is best to discard them? I'm worried I'll loose too much information if I simply discard not-merged reads.
Thank you.
So I'm working with pair-end data and I'm concerning regarding the merged/not-merged reads. I'm currently merging them using PEAR and QIIME 2, but I would not like to discard those not merged reads. Should I treat them as "single-end"-like reads? Or it is best to discard them? I'm worried I'll loose too much information if I simply discard not-merged reads.
Thank you.