Similarity matrices are used to place scores on similarities between two variables. The variables are set on a grid with one on the x axis and the other on the y axis. A legend with rankings of similarity is used to place scores in the box in which the two variables meet on the grid based on how similar the two variables are. The scores can be marked by anything from shades of colors to symbols. The diagram below is just an example of how a similarity matrix would look if the mapper used shades of colors to represent scores such as the lighter colors represent a higher score and the darker colors represent a smaller score
http://iv.slis.indiana.edu/sw/images/simvis-large.jpg
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