I used the classifier.qza above with the 2019.7, which worked well. However, the results were a little strange. Most of the sequences (99%), were shown up to level 1 in the taxonomy. And it reached the maximum to level 3 (class). I picked up some sequences from the rep-seqs.qzv and checked at BLAST search which showed up to specie level. I wonder if there is any other classifier to run with the command below
qiime feature-classifier classify-sklearn
I have already downloaded this one UNITE ITS QIIME2 release-> https://files.plutof.ut.ee/public/orig/51/6F/516F387FC543287E1E2B04BA4654443082FE3D7050E92F5D53BA0702E4E77CD4.zip
and checked this website https://unite.ut.ee/repository.php.
However, I just could not pickup the ITS classifier file (.qza) to be used in that command above. Could you please show me that?
In fact I also tried this one below but I got an error during the feature classifier again.
This one was OK
qiime tools import --type ‘FeatureData[Taxonomy]’ --input-format HeaderlessTSVTaxonomyFormat --input-path sh_taxonomy_qiime_ver7_dynamic_01.12.2017.txt --output-path ref-taxonomy.qza
Imported sh_taxonomy_qiime_ver7_dynamic_01.12.2017.txt as HeaderlessTSVTaxonomyFormat to ref-taxonomy.qza
The error appeared here. What was the issue?
qiime feature-classifier fit-classifier-naive-bayes --i-reference-reads rep-seqs.qza --i-reference-taxonomy ref-taxonomy.qza --o-classifier classifier.qza
Plugin error from feature-classifier:
not enough values to unpack (expected 2, got 0)