Normalize for sample size in 16S a-diversity analysis
Entering edit mode
7 months ago
bpvalderrama ▴ 10

Hi everyone!

I'm working with 6 samples of 16S microbiome data in R. When looking for correlation between sample size and diversity it seems to be a positive correlation for chao1 and observed index. Marginally not significative for shannon.

The questions are: 1) Should I normalize my samples? 2) Reading the vegan::rarefy documentation I realize that they recommend to use vegan::decostand function. What method should I use for normalization if I use decostand?

Thanks in advance

R 16S microbiome NGS • 218 views

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