I am trying to run Maaslin2 on my Humann3 gene pathway data. I have successfully imported my data into R and the data fit command seems to work, but the plots it generates are empty (just axes). The significant results tsv has many lines of significant results.
I do get some warnings when I run my data fit command.
input_data = df_input_data,
input_metadata = map,
output = “symph_output”,
fixed_effects = c(“symph”)
Warning (I get 50+ of this warning): 1: In max(nchar(x_axis_labels), na.rm = TRUE) :
no non-missing arguments to max; returning -Inf
Any ideas why the plots are empty?