asca_plots: ASCA Plot Methods

Description

Various plotting procedures for asca objects.

Usage

# S3 method for asca
loadingplot(object, factor = 1, comps = 1:2, ...)
# S3 method for asca
scoreplot(
  object,
  factor = 1,
  comps = 1:2,
  within_level = "all",
  pch.scores = 19,
  pch.projections = 1,
  gr.col = NULL,
  projections = TRUE,
  spider = FALSE,
  ellipsoids,
  confidence,
  xlim,
  ylim,
  xlab,
  ylab,
  legendpos,
  ...
)
permutationplot(object, factor = 1, xlim, xlab = "SSQ", main, ...)

Value

The plotting routines have no return.

Arguments

object: asca object.
factor: integer/character for selecting a model factor. If factor <= 0 or "global", the PCA of the input is used (negativ factor to include factor level colouring with global PCA).
comps: integer vector of selected components.
...: additional arguments to underlying methods.
within_level: MSCA parameter for chosing plot level (default = "all").
pch.scores: integer plotting symbol.
pch.projections: integer plotting symbol.
gr.col: integer vector of colours for groups.
projections: Include backprojections in score plot (default = TRUE).
spider: Draw lines between group centers and backprojections (default = FALSE).
ellipsoids: character "confidence" or "data" ellipsoids for balanced fixed effect models.
confidence: numeric vector of ellipsoid confidences, default = c(0.4, 0.68, 0.95).
xlim: numeric x limits.
ylim: numeric y limits.
xlab: character x label.
ylab: character y label.
legendpos: character position of legend.
main: Plot title.

Details

Usage of the functions are shown using generics in the examples in asca. Plot routines are available as scoreplot.asca and loadingplot.asca.

References