as_nomogram: Construct nomogram ojects for high-dimensional Cox models

In hdnom: Benchmarking and Visualization Toolkit for Penalized Cox Models

Construct nomogram ojects for high-dimensional Cox models

Description

Construct nomograms ojects for high-dimensional Cox models

Usage

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)

hdnom documentation built on April 24, 2023, 9:09 a.m.