setup_S_model: Setup survival part for outcome m

In DenisRustand/INLAjoint: Multivariate Joint Modeling for Longitudinal and Time-to-Event Outcomes with 'INLA'

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
)

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:

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)

DenisRustand/INLAjoint documentation built on Sept. 27, 2024, 3:46 a.m.