plot.riAFTBART_estimate | R Documentation |
This function creates the trace plots for the parameters from a fitted riAFT-BART model.
## S3 method for class 'riAFTBART_estimate' plot(x, focus = "sigma", id = NULL, ...)
x |
A fitted object of from riAFTBART_fit function. |
focus |
A character specifying which parameter to plot. |
id |
A numeric vector indicating the subject or cluster index to plot, when the object to plot is random intercepts or predicted log survival time. |
... |
further arguments passed to or from other methods. |
A plot
library(riAFTBART) set.seed(20181223) n = 5 # number of clusters k = 50 # cluster size N = n*k # total sample size cluster.id = rep(1:n, each=k) tau.error = 0.8 b = stats::rnorm(n, 0, tau.error) alpha = 2 beta1 = 1 beta2 = -1 sig.error = 0.5 censoring.rate = 0.02 x1 = stats::rnorm(N,0.5,1) x2 = stats::rnorm(N,1.5,0.5) trt.train = sample(c(1,2,3), N, prob = c(0.4,0.3,0.2), replace = TRUE) trt.test = sample(c(1,2,3), N, prob = c(0.3,0.4,0.2), replace = TRUE) error = stats::rnorm(N,0,sig.error) logtime = alpha + beta1*x1 + beta2*x2 + b[cluster.id] + error y = exp(logtime) C = rexp(N, rate=censoring.rate) # censoring times Y = pmin(y,C) status = as.numeric(y<=C) res <- riAFTBART_fit(M.burnin = 10, M.keep = 10, M.thin = 1, status = status, y.train = Y, trt.train = trt.train, trt.test = trt.test, x.train = cbind(x1,x2), x.test = cbind(x1,x2), cluster.id = cluster.id) plot(x = res, focus = "sigma")
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