plot.simplsca: Plot SIMPLS-CA basic results

Description

Plot method for objects of class "simplsca". 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 simplsca
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 "simplsca".
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 label
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.

Author

Gaston Sanchez

Details

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

Examples

Run this code

if (FALSE) {
 # load dataset linnerud
 data(linnerud)

 # apply simplsca
 simca = simplsca(linnerud[,1:3], linnerud[,4:6])

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

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

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

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

 # plot observations (as points) using components (u1,u2)
 plot(simca, what="observations", comps=c(1,2), where=c("u","u"))
 }