Hi, I used the following commonds to test differential abundance between groups at the taxnomic level 4 :
qiime gneiss balance-taxonomy
qiime tools export --input-path group_manner_1-y0_taxa_summary-L4.qzv --output-path group_manner_1-y0_taxa_summary-L4
However, I found many unssigned sequenced at taxnomic level4 appears at the final results:
It seems that qiime2 automatically supplement the unsigned taxonomic level the previous taxonomic level. It really confused me a lot.
I think it is better to remove these unsigned results since I can chose the
parameter “–p-taxa-level” to test the coresponding taxonomic levels.
Is there anything qiime can do to remove these unsigned features?
Or should I remove the sequences unannotated at level 4 before doing gneiss taxa_summary analysis ?