the matrix of scores coming from a multivariable analysis, typically a Principal Component Analysis (PCA)

the fist component of the matrix of variable loadings to be plotted.

the second component of the matrix of variable loadings to be plotted. as well as the levels of the experimental factors if specified in the input. See doProcessing or generateMetadata

the samples matrix with the correspondence of the raw spectra,

if not null, the name of one of the columns defining the factorial groups in the samples matrix at input

number indicating the amount by which plotting text and symbols should be scaled relative to the default.

confidence level for plotting the corresponding ellipse

gives the limit to be plotted of the first component

gives the limit to be plotted of the second component

colors vector for ellipses - automatically defined by default