-
Hello
I am running adonis() permanova test on rarefied and non-rarefied data in phyloseq object.
But I didn't get significant statistical difference
I was wondering if beta diversity metrics c…
-
I am very new to vegan package. I wonder what the funcion betadisper aims for? Since the help(betadisper) pointed out that the betadisper is a multivariate analogue of Levene's test for homogeneity of…
-
Hi!
I am trying to perform a PERMANOVA with metagenomics data (16S). But I have faced an error message when comparing goup distances, and I wonder how to deal with it to obtain pair-wise data.
I i…
elenu updated
2 years ago
-
Hello,
I have a Aitchison distance matrix (CLR Transformation+Euclidean distance), called temp_d, derived from 16S based data. I have various groups, and I wanted to analyze their variables with a…
-
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…
-
Hi,
I'm using permanova tests to evaluate the significance of a given factor in my dataset. Everything runs but I get surprising results, and I'm wondering if it's correct or if there could potenti…
-
If you don't mind I have a query if you can advice on
how can I add the p-value to the plot I produced using plot_ordination() function? for both cases of using adonis() and anosim()?
I attached …
-
I'm using PERMANOVA to calculate significant differences between groups in my beta-diversity analysis for 16S rRNA gene sequencing. However, while I understand the results, I don't understand what the…
-
Hi
I noticed that when computing the CLR transform from the transformCounts() function and comparing it to the result from when I first calculate the relative abundances and then apply the CLR transf…
-
App crashes (=remains gray) if I hit the Calculate button **without** selecting any category. Error on console:
```
Warning: Error in str2lang: :2:0: unexpected end of input
1: distM ~
^
2:…