Can I use other database for the taxonomic annotation?

Can I replace greengenes database with other databases, like HOMD or ORALCore database for the taxonomic analysis? If yes, which file should I use for the classification and how can I convert *.fna into *.qza?

qiime tools import
–input-path sequences.fna
–output-path sequences.qza
–type ‘FeatureData[Sequence]’ ?


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Yes, you can use other databases! There is both an overview of how the taxonomic classifiers work and also a tutorial on training taxonomic classifiers, which covers how to build the *.qza file you need.

Let me know if this helps. Getting databases into the right format can be hard, so please post any question you have along the way. :qiime2:



Thanks so much! The databases worked well!

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