ggplotLoadings: 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

ggplotLoadings(
  data,
  pc1 = 1,
  pc2 = 2,
  EV = NULL,
  associations = NULL,
  main = "Loadings",
  onlylabels = FALSE,
  highlabels = FALSE,
  gcontour = "ellipse"
)

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.
EV	Eigenvalues vector
associations	the associations matrix that gives for each cluster (column 2) the corresponding buckets (column 1). See getClusters
main	Change the default plot title on the rigth corner
onlylabels	if TRUE, put only the association names without drawing the cluster contours. Implies that association matrix is provided.
highlabels	if TRUE, put the the association names in blue, and others in grey. Implies that association matrix is provided and fONLYLABELS equal to TRUE.
gcontour	type of contour; possible values are : 'ellipse', 'polygon', 'ellipse2', 'none'

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