as_nomogram function

Construct nomogram ojects for high-dimensional Cox models

Construct nomograms ojects for high-dimensional Cox models

as_nomogram(
  object,
  x,
  time,
  event,
  pred.at = NULL,
  fun.at = NULL,
  funlabel = NULL
)

Arguments

• object: Model object fitted by hdnom::fit_*() functions.
• x: Matrix of training data used for fitting the model.
• time: Survival time. Must be of the same length with the number of rows as x.
• event: Status indicator, normally 0 = alive, 1 = dead. Must be of the same length with the number of rows as x.
• pred.at: Time point at which to plot nomogram prediction axis.
• fun.at: Function values to label on axis.
• funlabel: Label for fun axis.

Note

The nomogram visualizes the model under the automatically selected "optimal" hyperparameters (e.g. lambda, alpha, gamma).

Examples

data(smart)
x <- as.matrix(smart[, -c(1, 2)])
time <- smart$TEVENT
event <- smart$EVENT
y <- survival::Surv(time, event)

fit <- fit_lasso(x, y, nfolds = 5, rule = "lambda.1se", seed = 11)

nom <- as_nomogram(
  fit, x, time, event, pred.at = 365 * 2,
  funlabel = "2-Year Overall Survival Probability"
)

print(nom)
plot(nom)