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SIMPROF on large matrices
The dendrogram itself is rapidly calculated, at least for the agglomerative methods, since no sea...
SIMPROF tests
All of the clustering methods are able to exploit ‘similarity profile’ (SIMPROF) permutation test...
Clustering methods & choice of linkage
PRIMER 7 now carries out a wider range of clustering methods than previously: a) hierarchical agg...
Saving & opening triangular matrices
File>Save Resem As will save a resemblance matrix in internal binary PRIMER v7 (*.sid) format, th...
Corrections for missing data
Returning to the main purpose of resemblance measures, to describe similarity among samples, an i...
Correlation as similarity
Use of a correlation matrix between all pairs of variables as input to a multivariate ordination ...
Correlation between variables
One context in which resemblances between variables is often of primary interest is in dealing wi...
Analysing between variables
The introduction above of the concept of ‘distances’ among species raises the issue of how best t...
Relatedness supplied as resemblances
Note the alternative means of supplying the variable information, to these dissimilarity measures...
(Groundfish of European shelf waters)
Assemblage data from 93 groundfish species, those that could be reliably sampled and identified i...
Taxonomic dissimilarity measures
This concept of taxonomic distinctness can be carried over from a diversity index to a dissimilar...
Taxonomic distinctness/ aggregation files
A later section (15) discusses univariate diversity indices that can be computed from each sample...
(Plymouth particle-size analysis)
An example of a particle-size analysis (PSA) matrix has already been seen for Danish sediments at...
Between-curve distances
Another useful application of multivariate methods was touched on at the end of Section 4, namely...
Other coefficients
Returning to the quantitative resemblance coefficients in the •Others list, five further measures...
Presence/ Absence similarities
There are numerous similarity measures defined for simple species lists, i.e. when the data consi...
Quantitative similarity measures
In addition to Bray-Curtis $S_{17}$, and its zero-adjusted modification, PRIMER 7 also calculates...
Distance measures
The distance measures defined by L&L and calculated by PRIMER 7 (in addition to $D_1$) are: $ D_2...
Similarity to dissimilarity
L&L also assign $D_{14}$ to Bray-Curtis dissimilarity, the complement of $S_{17}$, defined earlie...
‘Modified Gower’
Anderson MJ, Ellingsen KE, McArdle BH 2006, Ecol Lett 9: 683-693 used Czekanowski’s mean characte...