Having trouble finding an answer out there about this but I imagine there is a way to do this that is probably relatively easy and that I’m just not thinking of!
I have two separate sets of sequences performed on two separate MiSeq runs. I have created taxa barplots for both when I originally got the seequences in (so did all the demux, dada2, etc. etc.). However, now we want to be able to compare the taxonomic composition across both these sets. Would I have to re-run everything or is there anyway to just combine them up?
I had previously been told that a seaparate dada2 run needs to be performed for each different sequencing run. Is that true? And if so how would I get one rep-seqs file from two different runs?