Why am I not obtaining appropriate cladogram?

Downstream analysis and statistics LEfSe
1

Hello, I am running LefSe on Galaxy and have obtained a few differential features by the same. But when I try to plot cladogram regarding the same, I am getting weird non conclusive image. Why is this happening?

Galaxy6-D)_Plot_Cladogram_on_data_3
Galaxy6-D)_Plot_Cladogram_on_data_31200Ă—900 194 KB

2

Hello,
This would happen if you don’t have any taxonomic classification data available, or if that information wasn’t correctly entered in. I’m attaching a sample file to show how these should appear, but generally you should have “|” between your level classifications, for example, “Bacteria|Proteobacteria|Gammaproteobacteria|Enterobacteriales|Enterobacteriaceae|Klebsiella”.
Best,
Meg
hmp_aerobiosis_small.txt (660.1 KB)

1 Like
3

Thanks @mishort . That solved my issue.
Yes, I just replaced and added | in between my taxonomic levels and the cladogram was ready.