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1.19 Contrasts
In some cases, what is of interest in a particular experimental design is not necessarily the com...
1.18 Additional assumptions
Recall that we assume for the analysis of a one-way design by PERMANOVA that the multivariate obs...
1.17 Methods of permutations
As for the one-way case, the distribution of each of the pseudo-F ratios in a multi-way design is...
1.14 Two-way crossed design (Subtidal epibiota)
The primary advantage of PERMANOVA is its ability to analyse complex experimental designs. The pa...
1.12 Monte Carlo P-values (Victorian avifauna)
In some situations, there are not enough possible permutations to get a reasonable test. Consider...
1.11 Pair-wise comparisons
Pair-wise comparisons among all pairs of levels of a given factor of interest are obtained by doi...
Download the installer
First, head to our download page. Where it says 'Choose your Software', choose 'PRIMER 7 with PE...
1.7 Assumptions
Recall that for traditional one-way ANOVA, the assumptions are that the errors are independent, t...
1.2 Partitioning
We shall begin by considering the balanced one-way (single factor) ANOVA experimental design. A f...
0.2 Contact details and installation of the PERMANOVA+ software
Getting in touch with us PERMANOVA+ for PRIMER was produced as a collaborative effort between Pro...
0.4 Changes from DOS to PERMANOVA+ for PRIMER
The new Windows interface All of the original DOS routines have been fully re-written, translat...
0.5 Using this manual
Typographic conventions The typographic conventions for this manual follow those used by for PRI...
0.3 Introduction to the methods of PERMANOVA+
Rationale PERMANOVA+ is an add-on package which extends the resemblance-based methods of PRIMER t...
Appendix 1: Index of example data
The following is a list of all (real) data sets used as examples in the text, where they are refe...
Appendix 2: Principal literature sources and further reading
A list of some of the core methods papers was given in the Introduction, and the source papers fo...
18.3 ‘Bootstrap average’ regions
The idea of the (univariate) bootstrap () is that our best estimate of the distribution of values...
18.2 Example: Indonesian reef corals, S. Tikus
The point is made here in Fig 18.1 for the Shannon diversity of coral community transects (% cove...
17.12 Examples
Example: Island fish species lists Fish species lists extracted from FishBase for a selection of ...
17.10 Concluding remarks on taxonomic distinctness
Early applications of taxonomic distinctness ideas in marine science can be found in for demersa...
17.9 Joint (AvTD, VarTD) analyses
The histogram and funnel plots of Figs. 17.7 and 17.8 are univariate analyses, concentrating on o...