do feature tables need to be rarefied prior to calculating diversity metrics?

[colinbrislawn (Colin J Brislawn)]

You may need to account for differences in sequencing depth somehow. Subsampling to an equal depth (rarifying) is one way to do that.

Is it necessary to rarefy FeatureData[Sequence] if I rarefy FeatureTable[Freqeuncy]?

Hi, I am trying to do UPGMA clustering for some data from different countries. I collected these data from different databases. Finally, I will use the following code; qiime diversity beta-rarefaction But, samples from some countries contain a very higher number of reads ( as much as 2.7 million), while samples of some countries have a very low number of reads (like only 9k). Eventually after denoising the data with Deblur, some samples have a very higher number of feature and other contain…

Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible