filter_samples_when???

Hey everyone,
I have 117 participants with 2 samples each. I wish to filter out some samples, let say I wish to choose only 85 participants. I checked that I can do it with qiime feature-table filter-samples. However, I am confused at which point in the qiime workflow should I do it? If I do it after performing deblur, will it change the results, compared to before performing deblur?
I am interested in taxonomy analysis and to improve the taxonomy accuracy.
Thank you

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Hi @Aakash_Mantri,

I would do this after deblur. …I might actually calculate your distance matrices before doing it. It will not change the results of deblurring.

You may. also find some of these threads useful:

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