plot.plsca: Plot PLS-CA basic results

In plsdepot: Partial Least Squares (PLS) Data Analysis Methods

Plot PLS-CA basic results

Description

Plot method for objects of class "plsca". This function plots either the variables or the observations, on the selected components (i.e. scores). Variables are plotted inside the circle of correlations. Observations are plotted on a scatter plot.

Usage

  ## S3 method for class 'plsca'
 plot(x, what = "variables",
    comps = c(1, 2), where = c("t", "t"), cex = 1,
    col.xlabels = "#5592e3", col.ylabels = "#fe9429",
    yfont = 2, pos = NULL, offset = 0.1,
    col.xarrows = "#5b9cf255", col.yarrows = "#fe942955",
    lwd = 3, length = 0, angle = 0, col.points = "#5592e3",
    pch = 21, pt.bg = "#5b9cf255", show.names = FALSE,
    xpd = TRUE, xlab = NULL, ylab = NULL, main = NULL,
    col.main = "gray35", cex.main = 1.2,
    col.axis = "gray40", show.grid = TRUE,
    col.grid = "gray95", ...)

Arguments

x	An object of class "plsca".
what	What to plot. Options are "variables" and "observations".
comps	An integer vector of length two to indicate which components to plot.
where	Where to plot the observations. A character vector of length two to indicate which components to use when plotting observations. This parameter will take into account the values in comps. Possible options are: c("t","u") for using x-y components, c("t","t"), for using x components, and c("u","u") for using y components. Default c("t","t").
cex	Character expansion for labels and points.
col.xlabels	Color for labels of X-block variables.
col.ylabels	Color for labels of Y-block variables.
yfont	Integer for specifying which font to use for Y-block labels. See font in graphical parameters par.
pos	Position for the text (see graphical paramaters par).
offset	When pos is specified, this value gives the offset of the labels.
col.xarrows	Color for the X-block arrows.
col.yarrows	Color for the Y-block arrows.
lwd	The line width of arrows.
length	Length of the edges of the arrow head (in inches).
angle	Angle from the shaft of the arrow to the edge of the arrow head.
col.points	Color for the points when what="observations".
pch	Plotting character symbol to use (see par).
pt.bg	Background (fill) color for the points given by pch=21:25.
show.names	Logical indicating whether to show labels of points. Only used when what="observations".
xpd	Logical for controlling clipping region of names and labels.
xlab	A title for the x axis.
ylab	A title for the y axis.
main	Main title of the plot.
col.main	Color of main title.
cex.main	Character expansion of main title.
col.axis	Color of axis annotations (tick marks and labels).
show.grid	Logical indicating whether to show grid lines.
col.grid	Color of grid lines. Only used when show.grid=TRUE.
...	Further arguments are passed to labels or points.

Details

Variables are displayed using the correlations of each block of variables with its set of components: $cor.xt and $cor.yu.

Author(s)

Gaston Sanchez

See Also

plsca

Examples

## Not run: 
 # load dataset linnerud
 data(linnerud)

 # apply plsca
 my_plsca = plsca(linnerud[,1:3], linnerud[,4:6])

 # plot variables (circle of correlations)
 plot(my_plsca, what="variables")

 # plot observations (as points) using components (t1,u1)
 plot(my_plsca, what="observations", comps=c(1,1), where=c("t","u"))

 # plot observations with names using components (t1,u1)
 plot(my_plsca, what="observations", comps=c(1,1),
      where=c("t","u"), show.names=TRUE)

 # plot observations (as points) using components (t1,t2)
 plot(my_plsca, what="observations", comps=c(1,2), where=c("t","t"))

 # plot observations (as points) using components (u1,u2)
 plot(my_plsca, what="observations", comps=c(1,2), where=c("u","u"))
 
## End(Not run)

plsdepot documentation built on April 1, 2023, 12:04 a.m.