Biplot


Biplots are a type of exploratory graph used in statistics, a generalization of the simple two-variable scatterplot. A biplot allows information on both samples and variables of a data matrix to be displayed graphically. Samples are displayed as points while variables are displayed either as vectors, linear axes or nonlinear trajectories. In the case of categorical variables, category level points may be used to represent the levels of a categorical variable. A generalised biplot displays information on both continuous and categorical variables.

Introduction and history

The biplot was introduced by K. Ruben Gabriel. Gower and Hand wrote a monograph on biplots. Yan and Kang described various methods which can be used in order to visualize and interpret a biplot. The book by Greenacre is a practical user-oriented guide to biplots, along with scripts in the open-source R programming language, to generate biplots associated with principal component analysis, multidimensional scaling, log-ratio analysis —also known as spectral mapping—discriminant analysis and various forms of correspondence analysis: simple correspondence analysis, multiple correspondence analysis and canonical correspondence analysis . The book by Gower, Lubbe and le Roux aims to popularize biplots as a useful and reliable method for the visualization of multivariate data when researchers want to consider, for example, principal component analysis, canonical variates analysis or various types of correspondence analysis.

Construction

A biplot is constructed by using the singular value decomposition to obtain a low-rank approximation to a transformed version of the data matrix X, whose n rows are the samples, and whose p columns are the variables. The transformed data matrix Y is obtained from the original matrix X by centering and optionally standardizing the columns. Using the SVD, we can write Y = ∑k=1,...pdkukvkT;, where the uk are n-dimensional column vectors, the vk are p-dimensional column vectors, and the dk are a non-increasing sequence of non-negative scalars. The biplot is formed from two scatterplots that share a common set of axes and have a between-set scalar product interpretation. The first scatterplot is formed from the points, for i = 1,...,n. The second plot is formed from the points, for j = 1,...,p. This is the biplot formed by the dominant two terms of the SVD, which can then be represented in a two-dimensional display. Typical choices of α are 1 and 0, and in some rare cases α=1/2 to obtain a symmetrically scaled biplot. The set of points depicting the variables can be drawn as arrows from the origin to reinforce the idea that they represent biplot axes onto which the samples can be projected to approximate the original data.