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    <p>You could custumize the pairs function. If you look at the code, the axis are drawn within 2 nested for-loops (one for rows and one for colums):</p> <p>Here is a custimized pairs function, were I just edited the sides in localAxis() within these for-loops:</p> <pre><code>pairs2 &lt;- function (x, labels, 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) { textPanel &lt;- function(x = 0.5, y = 0.5, txt, cex, font) text(x, y, txt, cex = cex, font = font) localAxis &lt;- function(side, x, y, xpd, bg, col = NULL, main, oma, ...) { if (side%%2 == 1) Axis(x, side = side, xpd = NA, ...) else Axis(y, side = side, xpd = NA, ...) } localPlot &lt;- function(..., main, oma, font.main, cex.main) plot(...) localLowerPanel &lt;- function(..., main, oma, font.main, cex.main) lower.panel(...) localUpperPanel &lt;- function(..., main, oma, font.main, cex.main) upper.panel(...) localDiagPanel &lt;- function(..., main, oma, font.main, cex.main) diag.panel(...) dots &lt;- list(...) nmdots &lt;- names(dots) if (!is.matrix(x)) { x &lt;- as.data.frame(x) for (i in seq_along(names(x))) { if (is.factor(x[[i]]) || is.logical(x[[i]])) x[[i]] &lt;- as.numeric(x[[i]]) if (!is.numeric(unclass(x[[i]]))) stop("non-numeric argument to 'pairs'") } } else if (!is.numeric(x)) stop("non-numeric argument to 'pairs'") panel &lt;- match.fun(panel) if ((has.lower &lt;- !is.null(lower.panel)) &amp;&amp; !missing(lower.panel)) lower.panel &lt;- match.fun(lower.panel) if ((has.upper &lt;- !is.null(upper.panel)) &amp;&amp; !missing(upper.panel)) upper.panel &lt;- match.fun(upper.panel) if ((has.diag &lt;- !is.null(diag.panel)) &amp;&amp; !missing(diag.panel)) diag.panel &lt;- match.fun(diag.panel) if (row1attop) { tmp &lt;- lower.panel lower.panel &lt;- upper.panel upper.panel &lt;- tmp tmp &lt;- has.lower has.lower &lt;- has.upper has.upper &lt;- tmp } nc &lt;- ncol(x) if (nc &lt; 2) stop("only one column in the argument to 'pairs'") has.labs &lt;- TRUE if (missing(labels)) { labels &lt;- colnames(x) if (is.null(labels)) labels &lt;- paste("var", 1L:nc) } else if (is.null(labels)) has.labs &lt;- FALSE oma &lt;- if ("oma" %in% nmdots) dots$oma else NULL main &lt;- if ("main" %in% nmdots) dots$main else NULL if (is.null(oma)) { oma &lt;- c(4, 4, 4, 4) if (!is.null(main)) oma[3L] &lt;- 6 } opar &lt;- par(mfrow = c(nc, nc), mar = rep.int(gap/2, 4), oma = oma) on.exit(par(opar)) dev.hold() on.exit(dev.flush(), add = TRUE) for (i in if (row1attop) 1L:nc else nc:1L) for (j in 1L:nc) { localPlot(x[, j], x[, i], xlab = "", ylab = "", axes = FALSE, type = "n", ...) if (i == j || (i &lt; j &amp;&amp; has.lower) || (i &gt; j &amp;&amp; has.upper)) { box() # edited here... # if (i == 1 &amp;&amp; (!(j%%2) || !has.upper || !has.lower)) # localAxis(1 + 2 * row1attop, x[, j], x[, i], # ...) # draw x-axis if (i == nc &amp; j != nc) localAxis(1, x[, j], x[, i], ...) # draw y-axis if (j == 1 &amp; i != 1) localAxis(2, x[, j], x[, i], ...) # if (j == nc &amp;&amp; (i%%2 || !has.upper || !has.lower)) # localAxis(4, x[, j], x[, i], ...) mfg &lt;- par("mfg") if (i == j) { if (has.diag) localDiagPanel(as.vector(x[, i]), ...) if (has.labs) { par(usr = c(0, 1, 0, 1)) if (is.null(cex.labels)) { l.wid &lt;- strwidth(labels, "user") cex.labels &lt;- max(0.8, min(2, 0.9/max(l.wid))) } text.panel(0.5, label.pos, labels[i], cex = cex.labels, font = font.labels) } } else if (i &lt; j) localLowerPanel(as.vector(x[, j]), as.vector(x[, i]), ...) else localUpperPanel(as.vector(x[, j]), as.vector(x[, i]), ...) if (any(par("mfg") != mfg)) stop("the 'panel' function made a new plot") } else par(new = FALSE) } if (!is.null(main)) { font.main &lt;- if ("font.main" %in% nmdots) dots$font.main else par("font.main") cex.main &lt;- if ("cex.main" %in% nmdots) dots$cex.main else par("cex.main") mtext(main, 3, 3, TRUE, 0.5, cex = cex.main, font = font.main) } invisible(NULL) } data(iris) pairs2(iris[1:4], main = "Anderson's Iris Data -- 3 species",pch = 21, bg = c("red", "green3", "blue")[unclass(iris$Species)]) </code></pre> <p><img src="https://i.stack.imgur.com/armTg.png" alt="enter image description here"></p> <p><strong>Edit</strong> Changed pairs2(), so that the axis appear only on the lower diagonal.</p>
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