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2.5 Dissimilarity coefficients
The converse concept to similarity is that of dissimilarity, the degree to which two samples are ...
2.4 Species similarities
Starting with the original data matrix of abundances (or biomass, area cover etc), the similarity...
1.2 PRIMER has some down sides
Like any software package, PRIMER has some down sides. PRIMER has a pretty specific niche As alre...
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...
3.4 How does adonis2 do it?
The adonis2 function (in the vegan package in R) will provide a partitioning of the total sum of ...
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'...
An analysis of biotic data
Rationale Multivariate data are very complex and can be difficult to analyse and interpret. Each ...
Overview
If you have purchased the PERMANOVA+ add-on, then you will have an additional menu item that allo...
Summary of the PERMANOVA analysis
A summary of the essential commands associated with performing this PERMANOVA analysis of the hol...
Summary of the pathway
A summary of the essential routines in PRIMER that were used to produce the 5-step analysis pathw...
Step 4 (continued): Key additional details about PERMANOVA in PRIMER
Following the PERMANOVA table of results, a suite of key additional details regarding the analysi...