I am using Qiime 2 2021.2 in Virtualbox and attempting to taxonomically classify my 16S data using the Silva 132 database (i.e,, built and trained my own classifier). I followed the tutorials on qiime2 for the most part, although my data was sequenced by Mr DNA, and that lab provides what is known as the fastq processor to remove forward and reverse primers (515F/806R) as well as barcodes. The sequences have a paired-end format and are already demultiplexed (Casava 1.8). Below is the .qzv file I used to further denoise my data, along with the resulting representative sequences and table .qzv files that were generated from denoising, and finally the the taxonomy.qzv file that was generated after I tested the classifier. I have also included all the code (sans the file paths) I used for these procedures below:
qiime tools import
qiime demux summarize
qiime dada2 denoise-paired
qiime feature-table summarize
--o-visualization table.qzv \
qiime feature-table tabulate-seqs
qiime feature-classifier classify-sklearn
qiime metadata tabulate
I can also include the code I used to build my classifier, I just didn't want to overdo it in this initial post.
As I said before, attached are the .qzv files from the initial import of my samples into q2 (demux-QA.qzv), the results from denoising the data (rep-seqs_081321.qzv, table.qzv), and the result from testing my classifier (16SInitialTaxonomy2.qzv). Any help with this would be hugely appreciated!!!