I am using ALDEx package for analysis of PICRUST2 output and gave me an error

Question

I am following the tutorial below in the link:

https://ycl6.github.io/16S-Demo/4_picrust2_tutorial.html

after copying this code :

# EC
set.seed(12345)
system.time({
        aldex2_EC1 = aldex(p2EC1, sample_data(ps1a)$Group, mc.samples = 500, test = "t", 
               effect = TRUE, denom = "iqlr", verbose = TRUE)
})

it gives me an error : Error in aldex.clr.function(as.data.frame(reads), conds, mc.samples, denom, : mismatch between number of samples and condition vector.

I am working on 5 or 6 samples.. I don't know what is the cause of the error

I have no solution in google.

Answer 1

You can use pathway_daa() in ggpicrust2 package. It support tens of DA methods include ALDEx2 and it works very easier.