prep_data_weighted_cif2: Prepare Data for Weighted CIF

Description

Prepares merged competing-risks and longitudinal severity data for weighted restricted mean analyses. The routine removes patients with zero follow-up or missing baseline severity, handles discharge-to-die cases, merges the longitudinal trajectory, and computes user-specified weighted time summaries for death-focused and discharge-focused analyses.

Usage

prep_data_weighted_cif2(
  data_main,
  data_long,
  wID_main = "USUBJID",
  wTimeToRecovery_main = "TTRECOV",
  wTimeToDeath_main = "TTDEATH",
  wRecov_Censoring_main = "RECCNSR",
  wDeath_Censoring_main = "DTHCNSR",
  wBaselineScore_main = "ordscr_bs",
  wTreatment_main = "trt",
  wID_long = "USUBJID",
  wADY_long = "ADYC",
  wScore_long = "ORDSCOR",
  wStates_death = c(4, 5, 6, 7),
  wWeights_death = c(2, 1.5, 1, 0.5),
  wStates_discharge = c(4, 5, 6, 7),
  wWeights_discharge = c(0.5, 1, 1.5, 2)
)

Value

A list containing:

data.ws.death and data.ws.discharge: Full merged datasets with an added wU column for (death) or (discharge).
Treatment.death and Control.death: Subsets for weighted WRMLT2 (death-focused).
Treatment.discharge and Control.discharge: Subsets for weighted WRMLT1 (recovery-focused).

Arguments

data_main: A data.frame with ID, TTR, TTD, RECCNSR, DTHCNSR, baseline score, trt, etc.
data_long: A data.frame with repeated clinical scores over time (e.g. ADYC, ORDSCOR).
wID_main: Name of the patient ID column in the main dataset (default "USUBJID").
wTimeToRecovery_main: Name of the time-to-recovery column (default "TTRECOV").
wTimeToDeath_main: Name of the time-to-death column (default "TTDEATH").
wRecov_Censoring_main: Name of the recovery-censor column (default "RECCNSR").
wDeath_Censoring_main: Name of the death-censor column (default "DTHCNSR").
wBaselineScore_main: Name of the baseline ordinal column (default "ordscr_bs").
wTreatment_main: Name of the treatment indicator column (0=control,1=treatment). Default "trt".
wID_long: Name of the patient ID column in the long dataset (default "USUBJID").
wADY_long: Name of the day-since-treatment column in the long dataset (default "ADYC").
wScore_long: Name of the ordinal score column in the long dataset (default "ORDSCOR").
wStates_death: Vector of ordinal states for death weighting (default c(4,5,6,7)).
wWeights_death: Numeric weights, same length as wStates_death (default c(2,1.5,1,0.5)).
wStates_discharge: Vector of states for discharge weighting (default c(4,5,6,7)).
wWeights_discharge: Numeric weights, same length as wStates_discharge (default c(0.5,1,1.5,2)).