Interpret alpha-diversity significance

[Heather_E]

Hello. Trying to figure out how to interpret diversity results. I do not fully understand the output for alpha-group signficance plots. What is the H value for the Kruskal-Wallis pairwise test? And is there an easier way to get value for Faith's PD or Shannon values per group other than downloading the raw table and calculating them myself? I know the program is calculating the median as well as quartiles because it is plotting them on the boxplot, but I would like to be able to report the exact numbers for each group and don't see that output anywhere. Attaching a screenshot for reference. Thank you!

[andrewsanchez]

Hi @Heather_E!

@Heather_E

Trying to figure out how to interpret diversity results. I do not fully understand the output for alpha-group signficance plots. What is the H value for the Kruskal-Wallis pairwise test?

Have you tried searching the forum? There are several threads about interpreting these results.

I think you will find this Topic and many others super helpful:

Interpreting results from pairwise Kruskal-Wallis

Hello, As part of the alpha-diversity analysis there is a Kruskal-Wallis pairwise test. I am a bit lost in terms of interpreting the results. More specifically, I do not know what the H value refers to and whether I should take it into account, and I am not sure of whether I should look at the adjusted q-value or at the p-value for significance. I have read on the forum that the q-value is a p-value with a Benjamini & Hochberg correction. So is q-value same as the Benjamini-Hochberg critical v…

Don't hesitate to follow up here with more questions after reading the above discussion and any others that you might find while searching the forum.

As for you other question:

@Heather_E

And is there an easier way to get value for Faith’s PD or Shannon values per group other than downloading the raw table and calculating them myself?

I need to do a bit more investigation and will get back to you about it.

Good luck!