I have 16S Illumina sequencing data from mouse stool samples. I used the original Caporaso et al. 515F/806R primers. Would you recommend generating my own classifier or can I use gg-13-8-99-515-806-nb-classifier.qza provided?
Welcome to the forum!
Personally, I’d use the pre-trained classifier for your hypervariable region. I might be careful with single end vs paired end, but I don’t think that should matter.
Once you have a classifier that works with your version of QIIME and primer set, you definitely don’t have to re-train it; my group has one classifier for our primer pair and that’s what we run.
Thanks, Justine! That’s super helpful.
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