plotLoadings: plotLoadings

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

plotLoadings

Description

Plots the two components defined by pc1, pc2 of the matrix of variable loadings coming from a multivariable analysis, typically a Principal Component Analysis (PCA). It can also plot the ellipses corresponding to each cluster defined by the associations matrix if not null. (in fact it is the main interest of this function).

Usage

plotLoadings(
  data,
  pc1,
  pc2,
  associations = NULL,
  main = "Loadings",
  xlimu = c(min(data[, pc1]), max(data[, pc1])),
  ylimu = c(min(data[, pc2]), max(data[, pc2])),
  cexlabel = 1,
  pch = 20,
  ellipse = TRUE,
  level = 0.8
)

Arguments

data	the matrix of variable loadings 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.
associations	the associations matrix that gives for each cluster (column 2) the corresponding buckets (column 1)
main	Change the default plot title on the rigth corner
xlimu	gives the limit to be plotted of the first component
ylimu	gives the limit to be plotted of the second component
cexlabel	number indicating the amount by which plotting text and symbols should be scaled relative to the default.
pch	Plotting Symbols
ellipse	boolean - specifies if ellipses are plot or not for each cluster
level	confidence level for plotting the ellipses

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