scatterplot3d2 <- function (x, y = NULL, z = NULL, color = par("col"), pch = NULL, main = NULL, sub = NULL, xlim = NULL, ylim = NULL, zlim = NULL, xlab = NULL, ylab = NULL, zlab = NULL, scale.y = 1, angle = 40, axis = TRUE, tick.marks = TRUE, label.tick.marks = TRUE, x.ticklabs = NULL, y.ticklabs = NULL, z.ticklabs = NULL, y.margin.add = 0, grid = TRUE, box = TRUE, lab = par("lab"), lab.z = mean(lab[1:2]), type = "p", highlight.3d = FALSE, mar = c(5, 3, 4, 3) + 0.1, col.axis = par("col.axis"), col.grid = "grey", col.lab = par("col.lab"), cex.symbols = par("cex"), cex.axis = 0.8 * par("cex.axis"), cex.lab = par("cex.lab"), font.axis = par("font.axis"), font.lab = par("font.lab"), lty.axis = par("lty"), lty.grid = par("lty"), lty.hide = NULL, lty.hplot = par("lty"), log = "", ...) { mem.par <- par(mar = mar) x.scal <- y.scal <- z.scal <- 1 xlabel <- if (!missing(x)) deparse(substitute(x)) ylabel <- if (!missing(y)) deparse(substitute(y)) zlabel <- if (!missing(z)) deparse(substitute(z)) if (highlight.3d && !missing(color)) warning("color is ignored when highlight.3d = TRUE") if (!is.null(d <- dim(x)) && (length(d) == 2) && (d[2] >= 4)) color <- x[, 4] else if (is.list(x) && !is.null(x$color)) color <- x$color xyz <- xyz.coords(x = x, y = y, z = z, xlab = xlabel, ylab = ylabel, zlab = zlabel, log = log) if (is.null(xlab)) { xlab <- xyz$xlab if (is.null(xlab)) xlab <- "" } if (is.null(ylab)) { ylab <- xyz$ylab if (is.null(ylab)) ylab <- "" } if (is.null(zlab)) { zlab <- xyz$zlab if (is.null(zlab)) zlab <- "" } if (length(color) == 1) color <- rep(color, length(xyz$x)) else if (length(color) != length(xyz$x)) stop("length(color) ", "must be equal length(x) or 1") angle <- (angle%%360)/90 yz.f <- scale.y * abs(if (angle < 1) angle else if (angle > 3) angle - 4 else 2 - angle) yx.f <- scale.y * (if (angle < 2) 1 - angle else angle - 3) if (angle > 2) { temp <- xyz$x xyz$x <- xyz$y xyz$y <- temp temp <- xlab xlab <- ylab ylab <- temp temp <- xlim xlim <- ylim ylim <- temp } angle.1 <- (1 < angle && angle < 2) || angle > 3 angle.2 <- 1 <= angle && angle <= 3 dat <- cbind(as.data.frame(xyz[c("x", "y", "z")]), col = color) if (!is.null(xlim)) { xlim <- range(xlim) dat <- dat[xlim[1] <= dat$x & dat$x <= xlim[2], , drop = FALSE] } if (!is.null(ylim)) { ylim <- range(ylim) dat <- dat[ylim[1] <= dat$y & dat$y <= ylim[2], , drop = FALSE] } if (!is.null(zlim)) { zlim <- range(zlim) dat <- dat[zlim[1] <= dat$z & dat$z <= zlim[2], , drop = FALSE] } n <- nrow(dat) if (n < 1) stop("no data left within (x|y|z)lim") y.range <- range(dat$y[is.finite(dat$y)]) if (type == "p" || type == "h") { y.ord <- rev(order(dat$y)) # dat <- dat[y.ord, ] if (length(pch) > 1) if (length(pch) != length(y.ord)) stop("length(pch) ", "must be equal length(x) or 1") # else pch <- pch[y.ord] daty <- dat$y daty[!is.finite(daty)] <- mean(daty[is.finite(daty)]) if (highlight.3d && !(all(diff(daty) == 0))) dat$col <- rgb(seq(0, 1, length = n) * (y.range[2] - daty)/diff(y.range), g = 0, b = 0) } p.lab <- par("lab") y.range <- range(dat$y[is.finite(dat$y)], ylim) y.prty <- pretty(y.range, n = lab[2], min.n = max(1, min(0.5 * lab[2], p.lab[2]))) y.scal <- round(diff(y.prty[1:2]), digits = 12) y.add <- min(y.prty) dat$y <- (dat$y - y.add)/y.scal y.max <- (max(y.prty) - y.add)/y.scal if (!is.null(ylim)) y.max <- max(y.max, ceiling((ylim[2] - y.add)/y.scal)) x.range <- range(dat$x[is.finite(dat$x)], xlim) x.prty <- pretty(x.range, n = lab[1], min.n = max(1, min(0.5 * lab[1], p.lab[1]))) x.scal <- round(diff(x.prty[1:2]), digits = 12) dat$x <- dat$x/x.scal x.range <- range(x.prty)/x.scal x.max <- ceiling(x.range[2]) x.min <- floor(x.range[1]) if (!is.null(xlim)) { x.max <- max(x.max, ceiling(xlim[2]/x.scal)) x.min <- min(x.min, floor(xlim[1]/x.scal)) } x.range <- range(x.min, x.max) z.range <- range(dat$z[is.finite(dat$z)], zlim) z.prty <- pretty(z.range, n = lab.z, min.n = max(1, min(0.5 * lab.z, p.lab[2]))) z.scal <- round(diff(z.prty[1:2]), digits = 12) dat$z <- dat$z/z.scal z.range <- range(z.prty)/z.scal z.max <- ceiling(z.range[2]) z.min <- floor(z.range[1]) if (!is.null(zlim)) { z.max <- max(z.max, ceiling(zlim[2]/z.scal)) z.min <- min(z.min, floor(zlim[1]/z.scal)) } z.range <- range(z.min, z.max) plot.new() if (angle.2) { x1 <- x.min + yx.f * y.max x2 <- x.max } else { x1 <- x.min x2 <- x.max + yx.f * y.max } plot.window(c(x1, x2), c(z.min, z.max + yz.f * y.max)) temp <- strwidth(format(rev(y.prty))[1], cex = cex.axis/par("cex")) if (angle.2) x1 <- x1 - temp - y.margin.add else x2 <- x2 + temp + y.margin.add plot.window(c(x1, x2), c(z.min, z.max + yz.f * y.max)) if (angle > 2) par(usr = par("usr")[c(2, 1, 3:4)]) usr <- par("usr") title(main, sub, ...) if (grid) { i <- x.min:x.max segments(i, z.min, i + (yx.f * y.max), yz.f * y.max + z.min, col = col.grid, lty = lty.grid) i <- 0:y.max segments(x.min + (i * yx.f), i * yz.f + z.min, x.max + (i * yx.f), i * yz.f + z.min, col = col.grid, lty = lty.grid) } if (axis) { xx <- if (angle.2) c(x.min, x.max) else c(x.max, x.min) if (tick.marks) { xtl <- (z.max - z.min) * (tcl <- -par("tcl"))/50 ztl <- (x.max - x.min) * tcl/50 mysegs <- function(x0, y0, x1, y1) segments(x0, y0, x1, y1, col = col.axis, lty = lty.axis) i.y <- 0:y.max mysegs(yx.f * i.y - ztl + xx[1], yz.f * i.y + z.min, yx.f * i.y + ztl + xx[1], yz.f * i.y + z.min) i.x <- x.min:x.max mysegs(i.x, -xtl + z.min, i.x, xtl + z.min) i.z <- z.min:z.max mysegs(-ztl + xx[2], i.z, ztl + xx[2], i.z) if (label.tick.marks) { las <- par("las") mytext <- function(labels, side, at, ...) mtext(text = labels, side = side, at = at, line = -0.5, col = col.lab, cex = cex.axis, font = font.lab, ...) if (is.null(x.ticklabs)) x.ticklabs <- format(i.x * x.scal) mytext(x.ticklabs, side = 1, at = i.x) if (is.null(z.ticklabs)) z.ticklabs <- format(i.z * z.scal) mytext(z.ticklabs, side = if (angle.1) 4 else 2, at = i.z, adj = if (0 < las && las < 3) 1 else NA) temp <- if (angle > 2) rev(i.y) else i.y if (is.null(y.ticklabs)) y.ticklabs <- format(y.prty) else if (angle > 2) y.ticklabs <- rev(y.ticklabs) text(i.y * yx.f + xx[1], i.y * yz.f + z.min, y.ticklabs, pos = if (angle.1) 2 else 4, offset = 1, col = col.lab, cex = cex.axis/par("cex"), font = font.lab) } } mytext2 <- function(lab, side, line, at) mtext(lab, side = side, line = line, at = at, col = col.lab, cex = cex.lab, font = font.axis, las = 0) lines(c(x.min, x.max), c(z.min, z.min), col = col.axis, lty = lty.axis) mytext2(xlab, 1, line = 1.5, at = mean(x.range)) lines(xx[1] + c(0, y.max * yx.f), c(z.min, y.max * yz.f + z.min), col = col.axis, lty = lty.axis) mytext2(ylab, if (angle.1) 2 else 4, line = 0.5, at = z.min + y.max * yz.f) lines(xx[c(2, 2)], c(z.min, z.max), col = col.axis, lty = lty.axis) mytext2(zlab, if (angle.1) 4 else 2, line = 1.5, at = mean(z.range)) if (box) { if (is.null(lty.hide)) lty.hide <- lty.axis temp <- yx.f * y.max temp1 <- yz.f * y.max lines(c(x.min + temp, x.max + temp), c(z.min + temp1, z.min + temp1), col = col.axis, lty = lty.hide) lines(c(x.min + temp, x.max + temp), c(temp1 + z.max, temp1 + z.max), col = col.axis, lty = lty.axis) temp <- c(0, y.max * yx.f) temp1 <- c(0, y.max * yz.f) lines(temp + xx[2], temp1 + z.min, col = col.axis, lty = lty.hide) lines(temp + x.min, temp1 + z.max, col = col.axis, lty = lty.axis) temp <- yx.f * y.max temp1 <- yz.f * y.max lines(c(temp + x.min, temp + x.min), c(z.min + temp1, z.max + temp1), col = col.axis, lty = if (!angle.2) lty.hide else lty.axis) lines(c(x.max + temp, x.max + temp), c(z.min + temp1, z.max + temp1), col = col.axis, lty = if (angle.2) lty.hide else lty.axis) } } x <- dat$x + (dat$y * yx.f) z <- dat$z + (dat$y * yz.f) col <- as.character(dat$col) if (type == "h") { z2 <- dat$y * yz.f + z.min segments(x, z, x, z2, col = col, cex = cex.symbols, lty = lty.hplot, ...) points(x, z, type = "p", col = col, pch = pch, cex = cex.symbols, ...) } else points(x, z, type = type, col = col, pch = pch, cex = cex.symbols, ...) if (axis && box) { lines(c(x.min, x.max), c(z.max, z.max), col = col.axis, lty = lty.axis) lines(c(0, y.max * yx.f) + x.max, c(0, y.max * yz.f) + z.max, col = col.axis, lty = lty.axis) lines(xx[c(1, 1)], c(z.min, z.max), col = col.axis, lty = lty.axis) } ob <- ls() rm(list = ob[!ob %in% c("angle", "mar", "usr", "x.scal", "y.scal", "z.scal", "yx.f", "yz.f", "y.add", "z.min", "z.max", "x.min", "x.max", "y.max", "x.prty", "y.prty", "z.prty")]) rm(ob) invisible(list(xyz.convert = function(x, y = NULL, z = NULL) { xyz <- xyz.coords(x, y, z) if (angle > 2) { temp <- xyz$x xyz$x <- xyz$y xyz$y <- temp } y <- (xyz$y - y.add)/y.scal return(list(x = xyz$x/x.scal + yx.f * y, y = xyz$z/z.scal + yz.f * y)) }, points3d = function(x, y = NULL, z = NULL, type = "p", ...) { xyz <- xyz.coords(x, y, z) if (angle > 2) { temp <- xyz$x xyz$x <- xyz$y xyz$y <- temp } y2 <- (xyz$y - y.add)/y.scal x <- xyz$x/x.scal + yx.f * y2 y <- xyz$z/z.scal + yz.f * y2 mem.par <- par(mar = mar, usr = usr) on.exit(par(mem.par)) if (type == "h") { y2 <- z.min + yz.f * y2 segments(x, y, x, y2, ...) points(x, y, type = "p", ...) } else points(x, y, type = type, ...) }, plane3d = function(Intercept, x.coef = NULL, y.coef = NULL, lty = "dashed", lty.box = NULL, ...) { if (!is.atomic(Intercept) && !is.null(coef(Intercept))) Intercept <- coef(Intercept) if (is.null(lty.box)) lty.box <- lty if (is.null(x.coef) && length(Intercept) == 3) { x.coef <- Intercept[if (angle > 2) 3 else 2] y.coef <- Intercept[if (angle > 2) 2 else 3] Intercept <- Intercept[1] } mem.par <- par(mar = mar, usr = usr) on.exit(par(mem.par)) x <- x.min:x.max ltya <- c(lty.box, rep(lty, length(x) - 2), lty.box) x.coef <- x.coef * x.scal z1 <- (Intercept + x * x.coef + y.add * y.coef)/z.scal z2 <- (Intercept + x * x.coef + (y.max * y.scal + y.add) * y.coef)/z.scal segments(x, z1, x + y.max * yx.f, z2 + yz.f * y.max, lty = ltya, ...) y <- 0:y.max ltya <- c(lty.box, rep(lty, length(y) - 2), lty.box) y.coef <- (y * y.scal + y.add) * y.coef z1 <- (Intercept + x.min * x.coef + y.coef)/z.scal z2 <- (Intercept + x.max * x.coef + y.coef)/z.scal segments(x.min + y * yx.f, z1 + y * yz.f, x.max + y * yx.f, z2 + y * yz.f, lty = ltya, ...) }, box3d = function(...) { mem.par <- par(mar = mar, usr = usr) on.exit(par(mem.par)) lines(c(x.min, x.max), c(z.max, z.max), ...) lines(c(0, y.max * yx.f) + x.max, c(0, y.max * yz.f) + z.max, ...) lines(c(0, y.max * yx.f) + x.min, c(0, y.max * yz.f) + z.max, ...) lines(c(x.max, x.max), c(z.min, z.max), ...) lines(c(x.min, x.min), c(z.min, z.max), ...) lines(c(x.min, x.max), c(z.min, z.min), ...) })) }