Hi! I am new for microbiome analysis and try to learn from the HMP2 paper (Lloyd-Price et al., 2019). In “Differential microbiome feature abundance” modeling, what are the considerations to exclude dysbiosis as an individual fixed effect, instead of a model like following:
feature ~ 1 + diagnosis + dysbiosis + diagnosis/dysbiosis + ..._
Thank you for your help!
Model from the paper:
