I want to ask if anybody know how exactly move from R to q2 ?
Dada2 workflow in R produces this kind of outputs:
errF and errR - the result of errors learning derepFs and derep Rs - the result of dereplication dadaFs and dada Rs - after sequences variants inference mergers - merged paired reads
seqtab.nochim - the file where first column is samples list, next columns headers are sequences after chimera removal and below we can see counts, see below:
As I mentioned in previous topic I prefer using R for dada2, however I would like to taxonomy assignment in qiime2 (and other downstream analysis). Have anyone an idea how to deal with this problem ? Maybe someone is already working like this ?