Hi, I’m sorry for asking such a rudimentary question, but I’m really new to this. Basically, I’ve run my samples through HUMANN 3.0, and I’d like to do further analysis on the functional data; specifically the pathway abundances, and I’m completely lost on what to do next and what tools to use. Maybe I’m overthinking it but reading the descriptions of all the tools have confused me more. I have joined all my samples together in one table, and I tried to put it through MaAsLin 2 and I get this output:
Error in FUN(newX[, i], ...) : invalid 'type' (character) of argument In addition: Warning message: In vegan::decostand(features_norm, method = "total", MARGIN = 1, : input data contains negative entries: result may be non-sense
I made sure that the sample columns lined up for both the function file and the metadata file, so not sure what exactly is wrong.
Honestly, I’m so lost and I don’t know what I’m doing wrong or where to go. Would really appreciate the help. Thank you in advance.