Only 2 two taxa from 18S taxa barplot

Hi @Namraj_Jaishi

The Silva database includes both 16S and 18S reads as stated by @colinbrislawn in the post linked below, so you should be able to train an 18S classifier using that database.

Qiime2 18S workflow

However, should you wish to use an alternative to Silva, there is a database called Protist Ribosomal Reference database, which is a SSU rRNA gene database.

18S reference dataset

I hope that helps!