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3.6 Vector overlays

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 3: Principal coordinates analys...

A new feature of the PERMANOVA+ add-on package is the ability to add vector overlays onto graphic...

Updated 3 months ago by Abby Miller

3.5 Negative eigenvalues

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 3: Principal coordinates analys...

The sharp-sighted will have noticed a conundrum in the output given for the Victorian avifauna sh...

Updated 3 months ago by Abby Miller

3.4 Example: Victorian avifauna

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 3: Principal coordinates analys...

As an example, consider the data on Victorian avifauna at the level of individual surveys, in the...

Updated 3 months ago by Abby Miller

3.3 Mechanics of PCO

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 3: Principal coordinates analys...

To construct axes that maximise fitted variation (or minimise residual variation) in the cloud of...

Updated 3 months ago by Abby Miller

3.2 Rationale

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 3: Principal coordinates analys...

It is difficult to visualise patterns in the responses of whole sets of variables simultaneously....

Updated 3 months ago by Abby Miller

2.12 Dispersion in crossed designs (Cryptic fish)

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 2: Tests of homogeneity of disp...

When two factors are crossed with one another, there may be several possible hypotheses concernin...

Updated 3 months ago by Abby Miller

2.11 Dispersion in nested designs (Okura macrofauna)

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 2: Tests of homogeneity of disp...

In many situations, the experimental design is not as simple as a one-way analysis among groups. ...

Updated 3 months ago by Abby Miller

2.10 Small sample sizes

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 2: Tests of homogeneity of disp...

There is one necessary restriction on the use of PERMDISP, which is that the number of replicate ...

Updated 3 months ago by Abby Miller

2.9 Dispersion as beta diversity (Norwegian macrofauna)

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 2: Tests of homogeneity of disp...

When used on species composition (presence/absence) data in conjunction with certain resemblance ...

Updated 3 months ago by Abby Miller

2.8 Choice of measure

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 2: Tests of homogeneity of disp...

An extremely important point is that the test of dispersion is going to be critically affected by...

Updated 3 months ago by Abby Miller

2.7 Ecological example (Tikus Island corals)

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 2: Tests of homogeneity of disp...

An ecological example of the test for homogeneity is provided by considering a study by on coral...

Updated 3 months ago by Abby Miller

2.6 Test based on medians

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 2: Tests of homogeneity of disp...

Levene’s test (for univariate data) can be made more robust (i.e. less affected by outliers) by u...

Updated 3 months ago by Abby Miller

2.4 Generalisation to dissimilarities

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 2: Tests of homogeneity of disp...

Of course, in many applications that we will encounter (especially in the case of community data)...

Updated 3 months ago by Abby Miller

2.2 Rationale

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 2: Tests of homogeneity of disp...

There are various reasons why one might wish to perform an explicit test of the null hypothesis o...

Updated 3 months ago by Abby Miller

1.38 Environmental impacts

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 1: Permutational ANOVA and MANO...

Some further comments are appropriate here regarding experimental designs to detect environmental...

Updated 3 months ago by Abby Miller

1.37 Asymmetrical designs (Mediterranean molluscs)

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 1: Permutational ANOVA and MANO...

Although a previous section has been devoted to the analysis of unbalanced designs, there are som...

Updated 3 months ago by Abby Miller

1.36 Linear combinations of mean squares (NZ fish assemblages)

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 1: Permutational ANOVA and MANO...

Several aspects of the above analysis demonstrate its affinity with unbalanced designs. Note that...

Updated 3 months ago by Abby Miller

1.35 Designs with covariates (Holdfast invertebrates, revisited)

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 1: Permutational ANOVA and MANO...

A topic that is related (perhaps surprisingly) to the topic of unbalanced designs is the analysis...

Updated 3 months ago by Abby Miller

1.16 Additivity

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 1: Permutational ANOVA and MANO...

Central to an understanding of what an interaction means for linear models25 is the idea of addit...

Updated 3 months ago by Abby Miller

1.34 Types of sums of squares (Birds from Borneo)

PERMANOVA+ for PRIMER: Guide to Softwar... Chapter 1: Permutational ANOVA and MANO...

When the design is unbalanced, there will be a number of different ways to do the partitioning, w...

Updated 3 months ago by Abby Miller