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3.3 Example: Bristol Channel zooplankton
perform hierarchical cluster analyses of zooplankton samples, collected by double oblique net ha...
2.5 Dissimilarity coefficients
The converse concept to similarity is that of dissimilarity, the degree to which two samples are ...
1.6 Example: Garroch Head macrofauna
describe the sampling of a transect of 12 sites across the sewage-sludge disposal ground at Garr...
2.1 Similarity for quantitative data matrices
Data matrix The available biological data is assumed to consist of an array of p rows (species) a...
2.2 Example: Loch Linnhe macrofauna
A trivial example, used in this and the following chapter to illustrate simple manual computation...
1.3 Example: Frierfjord macrofauna
The first example is from the IOC/GEEP practical workshop on biological effects of pollutants (),...
1.1 Introduction
The purpose of this opening chapter is twofold: a) to introduce some of the data sets which are u...
0.1 Introduction
Third edition The third edition of this unified framework for non-parametric analysis of multivar...
2.4 Species similarities
Starting with the original data matrix of abundances (or biomass, area cover etc), the similarity...
1.1 PRIMER has a lot going for it
PRIMER has a special focus - robust multivariate methods PRIMER is a specialised piece of softwar...
A three-factor hierarchical design
We will run PERMANOVA on an example dataset consisting of assemblages of molluscs collected from ...
4.2 Should I use PRIMER or R? (in short)
Use Both! The take-home message here is: use both! Neither replaces the other. They are good at d...
3.6 Summarising the comparison
In summary: I recommend using PERMANOVA in PRIMER. I do not recommend using adonis2 in R. Except...
2.2 R has some down sides
Like any software, R has some down sides. R has a steep learning curve R is a programming languag...
2.1 R has a lot going for it
R is a general tool (). It is a statistical programming language (). There are a lot of people us...
2.3 Pros and Cons of using R
To re-cap and summarise, below is a table outlining the primary pros and cons of using R, as I se...
1.3 Pros and Cons of using PRIMER
To re-cap and summarise, below is a table outlining the primary pros and cons of using PRIMER, as...
Matrix display
The Matrix display wizard produces a shade plot of a multivariate data matrix, with a useful orde...
Uninstall / re-install PRIMER
If you need to move the PRIMER software to a new machine (or re-image the machine), first uninsta...
1. General information
We're delighted that you've chosen to use PRIMER software. If you run in to any difficulties, we'...