plotScores: plotScores

In INRA/Rnmr1D: Perform the Complete Processing of a Set of Proton Nuclear Magnetic Resonance Spectra

plotScores

Description

Plots the two components defined by pc1, pc2 of the matrix of scores coming from a multivariable analysis, typically a Principal Component Analysis (PCA).

Usage

plotScores(
  data,
  pc1,
  pc2,
  samples,
  factor = NULL,
  cexlabel = 1.2,
  level = 0.95,
  xlim = NULL,
  ylim = NULL,
  col = NULL
)

Arguments

data	the matrix of scores coming from a multivariable analysis, typically a Principal Component Analysis (PCA)
pc1	the fist component of the matrix of variable loadings to be plotted.
pc2	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
samples	the samples matrix with the correspondence of the raw spectra,
factor	if not null, the name of one of the columns defining the factorial groups in the samples matrix at input
cexlabel	number indicating the amount by which plotting text and symbols should be scaled relative to the default.
level	confidence level for plotting the corresponding ellipse
xlim	gives the limit to be plotted of the first component
ylim	gives the limit to be plotted of the second component
col	colors vector for ellipses - automatically defined by default

INRA/Rnmr1D documentation built on April 11, 2024, 1:29 a.m.