Hi Jesus -
Thanks for providing the metadata sample - it’s very helpful! I tried using this on a toy abundance table, and was able to run Maaslin2 without errors. The metadata file and R code are attached. Maybe you could compare this versus your code to pin point where things might’ve broke?
If this does not solve the issue, it’d be great if you could provide a minimal reproducible example of the error, including R code and input files (with .txt/.tsv extensions). Feel free to mask away sensitive info or use toy data. For guidelines, refer to for example https://stackoverflow.com/help/minimal-reproducible-example.
Thanks!
Siyuan
library(Maaslin2)
input_metadata <- read.table("meta.txt", sep = "\t", row.names = 1, header = TRUE)
## Toy abundance table
input_data <- matrix(0.5, nrow = 2, ncol = nrow(input_metadata))
colnames(input_data) <- rownames(input_metadata)
## Maaslin2 runs without error
fit_Maaslin2 <- Maaslin2(input_data = input_data, input_metadata = input_metadata, output = "./")
meta.txt (454 Bytes)