Hi, To remove a specific feature from feature table, I used this code from qiime2 tutorials qiime taxa filter-table --i-table table.qza --i-taxonomy taxonomy.qza --p-mode exact --p-exclude "Ambiguous_taxa; Ambiguous_taxa; Ambiguous_taxa; Ambiguous_taxa; Ambiguous_taxa; Ambiguous_taxa; Ambiguous_ta…

Hi @Eman , Your command looks good but are you sure the feature you are trying to remove is copied into your command exactly? For example, the filtering tutorial is trying to filter a taxa found from the greengenes database which have double underscores __ instead of one _ that you showed above.

I copied the taxon from the taxonomy table, that is why I did not use D_0__, (taxonomy ranks) as in the tutorial. Thanks for your reply. I did nor receive any response since morning.

[image] Eman: I did nor receive any response since morning. Hi @Eman ! Please take a few moments to refresh your memory on the Code of Conduct, in particular: Code of Conduct - QIIME 2 Forum Thanks! :qiime2:

Oh! sorry, I am just frustrated when I stuck. Need help! Thanks

Hi @Eman , Like everything, patience will come with practice :wink: Ok, in order to reproduce your situation, could you please provide us with 1) your taxonomy.qza artifact, and 2) the exact commands you are performing via copy&paste. For your own reference, you can copy & paste your commands betwe…

Hi @Eman , Just realized that you had actually provided the exact command, I didn't put together that the ...Ambigious_taxa was actually the taxa you were trying to remove, I thought it was just a placeholder. Excuse my inattention and you can ignore my last request. Looks like in the Silva databas…

I will try it tomorrow as I left the campus. Will keep you updated. Thank you very much. Eman

Hello, I am working on a new set of data using qiime2-2019.4. When run qiime taxa filter-table --i-table table.qza --i-taxonomy taxonomy.qza --p-mode exact --p-exclude "Ambiguous_taxa; Ambiguous_taxa; Ambiguous_taxa; Ambiguous_taxa; Ambiguous_taxa; Ambiguous_taxa; Ambiguous_taxa" --o-filtered-tabl…

Hi @Eman , [image] Eman: and check qzv file, I still can see ambiguous taxa featureID?? This first error is just because of the spaces as mentioned previously. As for the next error, I have on suggestion. Are you by chance copy & pasting your input from another editor like Word? It might be …

Hi @Mehrbod_Estaki , Yes, I copy and paste from gedit file, however I wrote the command as you mentioned and the taxon is now removed (much thanks!). But usually copy and paste from gedit is working fine, except this time?? By the way, when I write the command as in tutorials (subsequent lines with…

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Can not remove a specific feature from feature table

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