Permanova result interpretation
Dear Tingting, If you tested an a priori grouping by adonis, you can say that these groups significantly different. It means that their difference is bigger than the random expectation (= exepected difference between random groups with same size). However, PCoA and UPGMA results indicates that this is not the best grouping, i.e. there may be grouping where two groups are more separated. Best wishes Zoltan 2016.06.06. 21:32 keltez?ssel, Tingting Chen ?rta:
Dear list,
I have did PCoA, UPGMA cluster analysis, and adonis on my data. And I got
no clear separation on the PCoA plot and clustering. However the Permanova
test is giving a very small P value. In this case, can I say these two
groups are significantly different?
Thank you very much for any help.
Best,
Tingting
Call:
adonis(formula = mat ~ Condition, data = meta, permutations = 9999)
Permutation: free
Number of permutations: 9999
Terms added sequentially (first to last)
Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
Condition 1 0.23217 0.232167 6.3284 0.14606 1e-04 ***
Residuals 37 1.35740 0.036686 0.85394
Total 38 1.58956 1.00000
---
Signif. codes: 0 ?***? 0.001 ?**? 0.01 ?*? 0.05 ?.? 0.1 ? ? 1
--------------------
Tingting Chen
PhD candidate
Whistler Center for Carbohydrate Research
Department of Food Science
Purdue University
745 Agriculture Mall Drive
West Lafayette, IN 47907
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