LEfSe for humann3

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.


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Thanks Kelsey. I have one more doubt. In the output, what does the y axis values in the box plot for categorical variables indicates? I checked the results file and could not find a column that represents the y axis.