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