Predictions of a strat_cox object

Return the model predictions of a strat_cox object

Usage

# S3 method for class 'strat_cox'
predict(
  fit,
  data,
  Z.char,
  lambda,
  which = 1:length(fit$lambda),
  type = c("link", "response", "vars", "nvars", "groups", "ngroups"),
  ...
)

Arguments

fit

a strat_cox object.

data

an dataframe or list object that contains the variables for prediction.

Z.char

names of covariates in data as vector of character strings.

lambda

values of the regularization parameter lambda at which predictions are requested. For values of lambda not in the sequence of fitted models, linear interpolation is used.

which

indices of the penalty parameter lambda at which predictions are required. By default, all indices are returned. If lambda is specified, this will override which.

type

type of prediction:

• link: linear predictors

• response: risk (i.e., exp(link))

• vars: the indices for the non-zero coefficients

• nvars: the number of non-zero coefficients

• groups: the indices for the non-zero groups

• ngroups: the number of non-zero coefficients

...

Examples

data(ContTime)
data <- ContTime$data
Event.char <- ContTime$Event.char
prov.char <- ContTime$prov.char
Z.char <- ContTime$Z.char
Time.char <- ContTime$Time.char
fit <- Strat.cox(data, Event.char, Z.char, Time.char, prov.char, group = c(1, 2, 2, 3, 3))
predict(fit, data, Z.char, lambda = fit$lambda, type = "response")[1:5, 1:5]
#>      0.0394    0.0368    0.0343     0.032    0.0298
#> [1,]      1 0.9341802 0.8746803 0.8227072 0.7768418
#> [2,]      1 0.9461696 0.8968936 0.8533355 0.8144665
#> [3,]      1 0.8974894 0.8084036 0.7334456 0.6695674
#> [4,]      1 0.9530925 0.9098448 0.8713543 0.8367885
#> [5,]      1 0.8908210 0.7966337 0.7179336 0.6513011