Clustering a phenotypic test assay

This tutorial illustrates how to cluster character data in BioNumerics. A test assay that reveals the metabolic activity of bacteria on different compounds is used as an example.

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 in BioNumerics version 7.6 format. This database is used in several tutorials and comes with the BioNumerics installation.

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

Share this: