Hi all,
I would like to use my 16S community data from different mesocosms to create LEfSe graphs, but in the cladogram plots, I merely see a circle with yellow dots, no green, red and blue clades as in the LEfSe figures that I have seen in publications. Also, instead of taxa (like Pseudomonas or Bacillus), I see OTU identifiers, although they should be classified correctly.
Can you tell me what I am doing wrong?
Thanks,
Boris
Data as been prepared with mothur make.lefse command (on usegalaxy.eu), and further processing has been done on the galaxy server at Huttenhower lab.