Currently I have two questions about running lefse
I didn’t use the subclass option (i.e. my command looks like format_lefse.py ~.txt -c 1 -u 2 -o 1000000)
Most importantly, I didn’t use the taxonomic hierarchy structure.
The purpose of analysis is just looking for specific taxa level marker(e.g. genus level) in 2 groups (e.g. CRC/healthy)
In this case, above two are still making lefse analysis valid??