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Global BEST test
The question of statistical significance testing on the results of the Bio-Env (or BVStep) proced...
(Messolongi diatoms & abiotic data)
A study of diatom assemblages (abundances of 193 species) at 17 sites in the lagoons of Messolong...
BEST results detail
The Next > button now takes you to a Results dialog box, which controls two features of the BEST ...
Limiting the number of combinations
The final area of the main BEST dialog, headed Permutations, which carries out the global BEST te...
The BEST matching statistic, $\rho$
On the mid-right of the main dialog for BEST, the box headed (Correlation method:) now offers thr...
2-way BEST
On the right of this main dialog box for BEST is another option new to PRIMER 7, also covered in ...
Grouping variables in BEST
After the initial choice of Method, the next area on the BEST dialog inputs the explanatory (fitt...
Bio-Env vs BVStep
BEST amalgamated the earlier (PRIMER 5) BIOENV and BVSTEP procedures (hence BEST = Bio-Env + Step...
BEST rationale
The main rationale for the Analyse>BEST procedure in PRIMER is to find the best match between the...
PCA of data on biomarkers
An example where a 3-d plot is marginally more necessary is given by the biomarker data last see...
Multiple 2-d & 3-d plots
As with MDS, use of Graph>Special>Main>Axes, with (Plot type•2D or •3D), allows any pairs or trip...
Bubble plots on PCA
Of the other options on the Graph>Special menu, overlaying groups from a CLUSTER run (which to be...
Trajectories on PCA
From the Graph>Special menu, remove the vector overlay by unchecking the (✓Overlay vectors) box o...
PCA plot options
Many of the options for manipulating PCA configurations are exactly the same as for MDS plots, co...
PC scores
The final table in the results window is headed Principal Component Scores – these can instead be...
PCA eigen-vector plot
Though the vector overlay has a tendency to clutter the plot, the changing contaminant load along...
Draftsman plots recap & transform choices
Normalisation (subtracting the mean and dividing by the standard deviation, for each variable), a...
Environment-type data
PRIMER uses the term environmental variables as a shorthand for a wide variety of data types (inc...
Tools menu - other items; Tools Options menu
Tools operations on resemblances which are discussed elsewhere are: a) Dissim and Unravel in Sect...
Transform on resemblances; Combining resemblances
Transforming resemblances remains in the Tools menu in PRIMER 7, since it is not an option for pr...