Non Metric Multidimensional scaling
Starting Configuration   MDS
Initial Start Position
This is a radio button selection. Select PCA to use a Principal Coordinates
Analysis to calculate the starting coordinates of the sites (columns). Select
random to use a random number generator to assign initial coordinates. The
default is to use a PCA. The algorithm used by CAP to find the final coordinates
will produce different results depending upon the starting configuration. Indeed, a
poor initial choice may result in the algorithm becoming trapped before a low
stress value is reached. Generally, PCA will produce a satisfactory choice. It is
often useful to undertake a few runs with random starting points to satisfy yourself
that the algorithm is finding a minimum stress solution.
Number of dimensions
. This is a slider bar activated by the mouse. The default
value is 2. If a higher number is chosen, the program will calculate the
configuration of the points from this dimension down to 1 dimension, list the final
stress for each number of dimensions under the Stress tab and display the
change in the stress value with number of dimensions graphically. The
coordinates of the points for the maximum number of dimensions is displayed
under the Sample coordinates tab. However, the plot of the positions of the site is
that found for a two dimensional space.
Similarity/Dissimilarity measure
. The measure to use is selected by clicking on
the radio button. A number of different measures can be used to calculate the
distances between sites. The options available are Euclidean distance, Sorensen
, Jaccard and simple matching similarity. The default is Sorensen s

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