I would like to analyze the effect of a treatment on psychological outcomes.
In this project we studied the gut microbiota as a possible mediator of the effect of the treatment on psychological outcomes.
To analyze the microbiota composition at baseline and its evolution during the treatment I carried out a CLR transformation on my microbiota data using your tutorial. We want to use PLS-DA with the shift of gut microbiota composition (with other biological parameters) to select the important variables to describe.When we use asv-relative abundance and clr we obtained quite different VIP scores for the delta (but not for the baseline data).
Does it make sense to subtract transformed data to create a delta for the microbiome variables?
I’m quite lost if anyone can help me
Thanks for your help.