predict.libsl {survivalSL}

Prediction from an Flexible Parametric Model

Description

Predict the survival based on a model or algorithm from an object of the class libsl.

Usage

## S3 method for class 'libsl'
predict(object, newdata, newtimes, ...)

Arguments

object

An object returned by the function LIB_AFTllogis, LIB_AFTggamma, LIB_AFTgamma, LIB_AFTweibull, LIB_PHexponential, LIB_PHspline or LIB_PHgompertz.

newdata

An optional data frame containing covariate values at which to produce predicted values. There must be a column for every covariate included in cov.quanti and cov.quali included in the training sample. The default value is NULL, the predicted values are computed for the subjects of the training sample.

newtimes

The times at which to produce predicted values. The default value is NULL, the predicted values are computed for the observed times in the training data frame.

...

For future methods.

Details

The model object is obtained from the flexsurvreg package.

Value

times

A vector of numeric values with the times of the predictions.

predictions

A matrix with the predictions of survivals of each subject (lines) for each observed time (columns).

Examples

data(dataDIVAT2)

# The estimation of the model from the first 200 lines
model <- LIB_PHgompertz(times="times", failures="failures", data=dataDIVAT2[1:200,],
  cov.quanti=c("age"),  cov.quali=c("hla", "retransplant", "ecd"))

# Predicted survival for 2 new subjects
pred <- predict(model,
  newdata=data.frame(age=c(52,52), hla=c(0,1), retransplant=c(1,1), ecd=c(0,1)))

plot(y=pred$predictions[1,], x=pred$times, xlab="Time (years)", ylab="Predicted survival",
     col=1, type="l", lty=1, lwd=2, ylim=c(0,1))

lines(y=pred$predictions[2,], x=pred$times, col=2, type="l", lty=1, lwd=2)

legend("bottomright", col=c(1,2), lty=1, lwd=2, c("Subject #1", "Subject #2"))