For my sequencing data, we removed a lot of off target amplification (eg tomato amplification) ASVs, so we are left with the ASV and counts of the cleaned data.
Is it possible to calculate weighted or unweighted unifrac from ASV Counts alone?
UniFrac distances are phylogenetic, so a tree is required.
You still can use a tree generated with all sequences or a better option would be to filter your representative sequences artifact by providing your filtered feature table, generate a tree and then run core-metrics phylogenetic plugin.
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