Interactions on pairwise.adonis2

[costavale]

Hi, I was trying to use the "pairwise.adonis2" on an interaction of two factors F1 and F2. F1 has 2 levels while F2 has 3 levels. I dont get the results of the function as only calculate F1L1 vs F1L2 without giving information about the levels of F2. In ?pairwise.adonis2 nothing is explained about the interaction. Am I missing something? strata?

Thank you Valentina

> pairwise.adonis2(sqrt(data[5:33]) ~ F1* F2, 
+                  data=data[1:3])
$parent_call
[1] "sqrt(data[5:33]) ~ F1* F2 , strata = Null"

$F1L1_vs_F1L2
Permutation: free
Number of permutations: 999

Terms added sequentially (first to last)

                         Df SumsOfSqs MeanSqs F.Model      R2 Pr(>F)    
F1                     1   0.15523 0.15523  7.5476 0.07162  0.001 ***
F2                     2   0.70157 0.35078 17.0560 0.32370  0.001 ***
F1:F2                 2   0.19994 0.09997  4.8607 0.09225  0.001 ***
Residuals         54   1.11059 0.02057         0.51243           
Total                59   2.16732                 1.00000           
---
Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1

attr(,"class")
[1] "pwadstrata" "list"

[ghost]

Hi Valentina,

I am having the same issue. Did you find a solution / answer for it?

Thank you!

Pablo

[costavale]

Hi Pablo, unfortunately no solution and you are the first person that was answering! at the end I was re-doing the permanova with P**ER....

If you find something, let me know.

Vale

[sofiabiffi]

Same issue here unfortunately

[costavale]

did someone find some solutions?

[pmartinezarbizu]

Hi Valentina and Pablo, I clearly state in the front page:

'NOTE: This is still a raw developing version -- results may not be rigth. I would appreciate feed back.!

This is because I am not sure the the fuction is calculating everything rigth, I would appreciate if you could send me an example dataset, a formula and an example result. So I can start understanding how it should be. My function is just a wrapper around adonis. But the formula seems to be complicated to formulate with iterations and strata. I am a bit lost, I must admit.

Pedro

[costavale]

Hi Pedro, sorry but after more than 1 year I don't recall the dataset... You can try with a "random" dataset, test the interactions and if you want, post here the results.

Thank you Valentina

[pmartinezarbizu]

sorry but after more than 1 year I don't recall the dataset... So the problem is solved? How did you solve the problem?, if you share your solution this will help everybody. Pedro

[alebernnal]

Hi!

I just found a similar problem with my data. I have significant interaction between two factors, but pairwise.adonis2 only shows pairwise results between levels of one factor... any advice?