Thanks for the kind responses.
I found that I have 30 samples contained in distinct directories.
So, I put those into a directory and ran the import command with
an extended manifest file:
Then, summarized it into a gzv format as follows:
demux_A4.qzv (287.7 KB)
After this, I wanted to denose the sequences to harvest OTU (or feature table?). So, I followed dada2 procedure:
qiime dada2 denoise-paired
denoising-stats_A4.qzv (1.2 MB)
It took a long time but I think I made a mistake on choosing the parameters or other parts.
Because when I run the code for clustering:
qiime vsearch cluster-features-open-reference
It finishes within 3 mins. But, it supposed be much longer from the tutorial.
So, These were things I have wrestled with so far.
I am still dabbler in this area; so, I might be using awkward wordings here and there.
But, if you could give me a small clue for the right direction, I would be very appreciated!