I have a problem with paired sample when running Maasslin2.
I am a newbie and I have a count dataset with paired sample (tumor and non-tumor) for each subject. I run Maaslin2 with Subject as a random effect and Group (tumor and non-tumor) as fixed effects, but R session aborted (R encountered a fatal error). But when I run with just fixed effect, Maaslin2 run completely.
This is Maaslin2 code:
input_data, input_metadata, output,
min_prevalence = 0.1,
normalization = “TMM”,
transform = “NONE”,
analysis_method = “NEGBIN”,
fixed_effects = c(“Group”),
random_effects = c(“Subject”),
Is something wrong?
Hope to receive help from everyone!