I am using Maaslin2 for analysis with only one fixed effect (5 variables, 1 reference). Results are quite interesting but they seem to be invalid as “N” which is the total number of samples used in the model for association is showing out to be 1 per sample.
I also don’t have any data in my significant results table and I believe it is because the total number of samples is showing 1 so they can’t compare.
I will be very grateful if you can help me with this problem.
I am trying to compare path abundances from HUMAnN
Here is my code
fit_data_relab = Maaslin2(input_data = relab_pathabundance_2_2_23, input_metadata = metafile_relab_pathabundance_2_2_23, min_prevalence = 0,normalization = “NONE”,output = “relab_output”,fixed_effects = c(“Case”),reference = c(“Case,T1”))
Thank you again for this very powerful and easy-to-use tool!