Hi. I have pathways result from Humann3 that I would like to perform stat and visualization. I have one metadata with categorical variables. Can I use LEfSe for this? Or should I go with Maaslin? Please provide your feedback. Thanks
Hi @Dhananjai_Mp,
Generally, we suggest migrating to MaAsLin at this point. We are still actively maintaining this tool, while LEfSe has not been under active support for several years.
The MaAsLin tutorial has a section that directly addresses using MaAsLin on the output of functional tools if you would like more information.
Best,
Kelsey