Calculating a PCA and MDS on a character data set

This tutorial illustrates how to calculate a Principal Components Analysis (PCA) and a Multi Dimensional Scaling (MDS) on a character data set and how to change the layout of the obtained plots.

Characters

A character is basically a name-value pair of which the value can be binary, multi-state or continuous. Because of this very broad definition, a wide variety of data can be analyzed as character types (= an array of characters). This includes morphological and biochemical features, commercial test panels (API®, Biolog®, Vitek®, etc.), antibiotics resistance profiles, fatty acid profiles, microarrays, SNP arrays, repeat numbers in MLVA, allelic profiles in MLST, etc.

Download demonstration database: 
DemoBase Connected

The DemoBase Connected demonstration database. This database is used in several tutorials.

Note that the downloaded database backup file (.bnbk) can be restored via the Restore database... functionality in the BIONUMERICS startup screen.