Nothing
plot.competing.risk.rfsrc <- function (x, plots.one.page = FALSE, ...) {
## Incoming parameter checks. All are fatal.
if (is.null(x)) {
stop("object x is empty!")
}
if (sum(inherits(x, c("rfsrc", "grow"), TRUE) == c(1, 2)) != 2 &
sum(inherits(x, c("rfsrc", "predict"), TRUE) == c(1, 2)) != 2) {
stop("This function only works for objects of class `(rfsrc, grow)' or '(rfsrc, predict)'.")
}
if (x$family != "surv-CR") {
stop("this function only supports competing risk settings")
}
## work-horse plotting function
comprplot <- function(matx, ylab = "", legend = "", pos = 2) {
m <- dim(cbind(matx))[2]
if (m > 1) legend <- paste(legend, 1:m, " ")
matplot(x$time.interest, matx, xlab = "Time", ylab = ylab, type = "l",
col = (1:m), lty = 1, lwd = 3)
legend(c("bottomleft", "topleft", "topright", "bottomright")[pos],
legend = legend,
col = (1:m),
lty = 1,
lwd = 3)
}
## save par settings
opar <- par(no.readonly = TRUE)
on.exit(par(opar))
if (plots.one.page) par(mfrow = c(1,1)) else par(mfrow = c(2,2))
## acquire the estimators - use OOB whenever possible
if (!is.null(x$chf.oob)) {
cschf <- apply(x$chf.oob, c(2, 3), mean, na.rm = TRUE)
cif <- apply(x$cif.oob, c(2, 3), mean, na.rm = TRUE)
}
else {
cschf <- apply(x$chf, c(2, 3), mean, na.rm = TRUE)
cif <- apply(x$cif, c(2, 3), mean, na.rm = TRUE)
}
cpc <- do.call(cbind, lapply(1:ncol(cif), function(j) {
cif[, j] / (1 - rowSums(cif[, -j, drop = FALSE]))
}))
## plot the results
comprplot(cschf, "Cause-Specific CHF", "CSCHF", 2)
comprplot(100 * cif, "Probability (%)", "CIF", 2)
comprplot(100 * cpc, "Probability (%)", "CPC", 2)
}
plot.competing.risk <- plot.competing.risk.rfsrc
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