Results different after training feature classifier

[Nicholas_Bokulich]

Hi @kamalghazali welcome to the forum!

It sounds like your reads are in mixed orientations. See this topic for more details on what is happening, and some troubleshooting steps:

Bug when classifying isolate 16S sequences

Hi @laurenmlui, Very strange. To give me something to work with, would you mind running qiime metadata tabulate on the full data (~1000 seqs) and non-buggy test subset (7-10 seqs) and posting the QZVs here? Are your reads all in the same orientation? What happens with you add --p-read-orientation same (or --p-read-orientation reverse-complement) to the command? I suspect the orientation predictor is going haywire so setting the correct orientation may set things straight. Why do I think that…