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Step 4: Run PERMANOVA
Once the design file is created, we are ready to go ahead with the PERMANOVA analysis. Click on the 'Jaccard' resemblance matrix in the Explorer tree so that it is the active item in the workspace, then click PERMANOVA+ > PERMANOVA... Check to see that th...
Step 4 (continued): Key additional details about PERMANOVA in PRIMER
Following the PERMANOVA table of results, a suite of key additional details regarding the analysis can be seen in the PERMANOVA output file. (Note: It is not necessary to fully unpack all of these details to continue on with the analysis and interpretation of ...
Step 5: Ordination of centroids
Having seen the results of a PERMANOVA analysis, it is natural to wish to see a visualisation of the patterns among centroids belonging to different groups or combinations of levels of different factors in the study design. In many cases, particularly if there...
Summary of the PERMANOVA analysis
A summary of the essential steps associated with performing this PERMANOVA analysis of the holdfast data according to the 3-factor hierarchical experimental design is given in the table below: Step To implement in PRIMER: 1. Select variable subset From ...
References
Anderson (2001a) Anderson, M.J. (2001a) A new method for non-parametric multivariate analysis of variance. Austral Ecology, 26, 32-46. Anderson (2001b) Anderson, M.J. (2001b) Permutation tests for univariate or multivariate analys...