Hi,
I have a question on how to train a classifier on V3-V4 regions using Greengenes2 and a specified primer pair. In detail, in the past I usually trained the classifiers using the following commands starting from Greengenes 99% OTU sequences:
qiime feature-classifier extract-reads
--i-sequences 99_otus.qza
--p-f-primer CCTACGGGNBGCASCAG
--p-r-primer GACTACNVGGGTATCTAATCC
--o-reads ref-seqs-classifier.qza
qiime feature-classifier fit-classifier-naive-bayes
--i-reference-reads ref-seqs-classifier.qza
--i-reference-taxonomy ref-taxonomy.qza
--o-classifier v3v4classifier.qza
How can I proceed to obtain the analogous classifier with this new Greengenes2 database?
Thank you for your precious work and kind help!
Ilaria