\Header{pairs}{Scatterplot Matrices}
\methalias{pairs.default}{pairs}
\keyword{hplot}{pairs}
\begin{Description}\relax
A matrix of scatterplots is produced.\end{Description}
\begin{Usage}
\begin{verbatim}
pairs(x, ...)
pairs.default(x, labels = colnames(x), panel = points, ...,
              lower.panel = panel, upper.panel = panel,
              diag.panel = NULL, text.panel = textPanel,
              label.pos = 0.5 + has.diag/3,
              cex.labels = NULL, font.labels = 1,
              row1attop = TRUE, gap=1)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{x}] the coordinates of points given as columns of a matrix.
\item[\code{labels}] the names of the variables.
\item[\code{panel}] \code{function(x,y,...)} which is used to plot
the contents of each panel of the display.
\item[\code{...}] graphical parameters can be given as arguments to
\code{plot}.
\item[\code{lower.panel, upper.panel}] separate panel functions to be used
below and above the diagonal respectively.
\item[\code{diag.panel}] optional \code{function(x, ...)} to be
applied on the diagonals.
\item[\code{text.panel}] optional \code{function(x, y, labels, cex,
      font, ...)} to be applied on the diagonals.
\item[\code{label.pos}] \code{y} position of labels in the text panel.
\item[\code{cex.labels, font.labels}] graphics parameters for the text panel.
\item[\code{row1attop}] logical. Should the layout be matrix-like with row 1
at the top, or graph-like with row 1 at the bottom?
\item[\code{gap}] Distance between subplots, in margin lines.
\end{ldescription}
\end{Arguments}
\begin{Details}\relax
The \eqn{ij}{}th scatterplot contains \code{x[,i]} plotted against
\code{x[,j]}.  The ``scatterplot' can be customised by setting panel
functions to appear as something completely different. The
off-diagonal panel functions are passed the appropriate columns of
\code{x} as \code{x} and \code{y}: the diagonal panel function (if
any) is passed a single column, and the \code{text.panel} function is
passed a single \code{(x, y)} location and the column name.

The graphical parameters \code{pch} and \code{col} can be used to
specify a vector of plotting symbols and colors to be used in the
plots.

The graphical parameter \code{oma} will be set by \code{pairs.default}
unless supplied as an argument.\end{Details}
\begin{Author}\relax
Enhancements for \R{} 1.0.0 contributed by Dr. Jens
Oehlschlaegel-Akiyoshi and R-core members.\end{Author}
\begin{Examples}
\begin{ExampleCode}
data(iris)
pairs(iris[1:4], main = "Anderson's Iris Data -- 3 species", 
      pch = 21, bg = c("red", "green3", "blue")[codes(iris$Species)])

data(USJudgeRatings)
pairs(USJudgeRatings)

## put histograms on the diagonal
panel.hist <- function(x, ...)
{
    usr <- par("usr"); on.exit(par(usr))
    par(usr = c(usr[1:2], 0, 1.5) )
    h <- hist(x, plot = FALSE)
    breaks <- h$breaks; nB <- length(breaks)
    y <- h$counts; y <- y/max(y)
    rect(breaks[-nB], 0, breaks[-1], y, col="cyan", ...)
}
pairs(USJudgeRatings[1:5], panel=panel.smooth,
      cex = 1.5, pch = 24, bg="light blue",
      diag.panel=panel.hist, cex.labels = 2, font.labels=2)

## put (absolute) correlations on the upper panels,
## with size proportional to the correlations.
panel.cor <- function(x, y, digits=2, prefix="", cex.cor)
{
    usr <- par("usr"); on.exit(par(usr))
    par(usr = c(0, 1, 0, 1))
    r <- abs(cor(x, y))
    txt <- format(c(r, 0.123456789), digits=digits)[1]
    txt <- paste(prefix, txt, sep="")
    if(missing(cex.cor)) cex <- 0.8/strwidth(txt)
    text(0.5, 0.5, txt, cex = cex * r)
}
pairs(USJudgeRatings, lower.panel=panel.smooth, upper.panel=panel.cor)
\end{ExampleCode}
\end{Examples}

