I would like to determine and visualize the Spearman's correlation coefficients between the measured environmental variables and the microbial community data on genus level. The community data is given in relative abundance and I standardized the data of the environmental variables.
Now I was wondering if I should use the standardized values for the environmental variables or the measured values? And do I need to transform the community data using for example Bray-Curtis distance?
I think you need to convert the environmental variables into levels, then compute the number of genus level for each level of environmental variables. After that you can conduct Chi-square test to find the relationship between each environmental Variable and the abundance of microbs.
As explained by Abdulmuhsin S. Shihab . however, for spearman’s correlation, you don’t use chi-squared.
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