I am looking for main differences between two R Objects constructed for analysis of microbiome data: phyloseq object and TreeSummarizedExperiment object I am looking for main differences between two R Objects constructed for analysis of microbiome data: phyloseq object and TreeSummarizedExperiment object
First, I will provide a little information about both objects and then ask the questions later, in order to avoid repetitions of familiar points in the discussion. First, I will provide a little information about both objects and then ask the questions later, in order to avoid repetitions of familiar points in the discussion.
I have mentioned the obvious differences above, because I am looking for advice from people with experience with these packages. I have mentioned the obvious differences above, because I am looking for advice from people with experience with these packages.
My goal is to perform Longitudinal analysis of microbiome data with regards to different parameters of alpha and beta diversity. My goal is to perform Longitudinal analysis of microbiome data with regards to different parameters of alpha and beta diversity.
I am looking for differences between the two packages in terms of Statistical tests, methodological considerations, community support and programming difficulty. I am looking for differences between the two packages in terms of Statistical tests, methodological considerations, community support and programming difficulty.
I would also like to know what these two packages differ in terms of handling different models like Generalized Linear Mixed Models (GLMMs) or Zero-Inflated Binomial Models to account for overdispersion and handles normalization and p-value adjustment I would also like to know what these two packages differ in terms of handling different models like Generalized Linear Mixed Models (GLMMs) or Zero-Inflated Binomial Models to account for overdispersion and handles normalization and p-value adjustment
