The bioBakery help forum

Lefse for Temporal comparitive analysis

Can i use LefSe on time-point metatranscriptomics data (for temporal comparison)? To identify the features associated with different time points?

Thanks for your question. A previous thread addresses this question I believe: Longitudinal data in Lefse

Basically, LEfSe isn’t designed to accommodate different time points, but MaAsLin2 is suited for that kind of analysis. I hope that helps!