PERMANOVA- beta-group-significance

[idapantoja]

Hi all,

Hope everyone is doing well.

I have a question specifically for the step calculating the PERMANOVA using the command beta-group-significance. Is there a way I can calculate the R2 there and get the value in the table together with the pvalues?

I would appreciate your help.
Thanks!
Ida

[Nicholas_Bokulich]

Hi @idapantoja,
beta-group-significance does not report an R2 value. You could use qiime diversity adonis instead, which does report an R2 value.

Good luck!

[idapantoja]

Hi @Nicholas_Bokulich!

Thanks so much for the response! Adonis use Permanova too?

Ida

[Nicholas_Bokulich]

@idapantoja

Adonis use Permanova too?

Yes, see here for details: https://www.rdocumentation.org/packages/vegan/versions/2.4-2/topics/adonis