setup_S_model: Setup survival part for outcome m

Description

Setup survival part for outcome m (internal function) input:

Usage

setup_S_model(
  formula,
  formLong,
  dataSurv,
  LSurvdat,
  timeVar,
  assoc,
  id,
  m,
  K,
  M,
  NFT,
  corLong,
  dataOnly,
  SurvInfo,
  strata
)

Value

YS_data includes the values of the survival outcome and covariates associated to this survival part, with the association parameters but the provided id are temporary and they will be updated after the cox expansion to make them unique and allow for time dependency

YSformF formula for this survival outcome (not including association parameters)

Arguments

formula: with inla.surv() object as an outcome
formLong: formula from the longitudinal part, if any
dataSurv: dataset(s) for the survival part
LSurvdat: dataset for the longitudinal part converted to survival format (internal, used to get covariates if missing in the survival dataset when sharing linear predictors including covariates from longitudinal into survival)
timeVar: names of the variables that are time-dependent (only linear for now)
assoc: association parameters between K longitudinal outcomes and M survival outcomes (list of K vectors of size M)
id: name of the variable that gives the individual id
m: identifies the outcome among 1:M time-to-event outcomes
K: number of longitudinal outcomes
M: number of survival outcomes
NFT: maximum number of functions of time (fixed value)
corLong: boolean that indicates if random effects across longitudinal markers are correlated, when multiple longitudinal markers are included in the model
dataOnly: boolean for internal use, indicates if only preparing data (i.e., not fitting the model)
SurvInfo: information about survival submodels for internal use
strata: covariate for stratified proportional hazards model output: