Issues with Unifrac calculations

Microbial community profiling MetaPhlAn
1

I am trying to calculate unifrac beta diversity. I used the SGB tree in the Newick format, but I received the error messages. PS: I had no issues calculating other alpha and beta diversities.
Thanks!

Error in FUN(X[[i]], …) : attempt to set index 0/0 in SET_STRING_ELT
Calls: → lapply → FUN
In addition: Warning message:
In FUN(X[[i]], …) : NAs introduced by coercion
Execution halted

2

I had this problem myself a few days ago.

Are you using the most recent tree “mpa_vOct22_CHOCOPhlAnSGB_202212.nwk”?

In my case I was using the tree from Jan21.

3

I tried both nwk version, and got the same error messages. : (

4

Hi @anitalijia which metaphlan database version are you using when running metaphlan?, you can check it in the first lines of your profiles