adjustment: Cox PH – Taylor expansion adjustment for Long-term survival...

In cyhsuTN/AdjCOXPH: A Novel Adjustment Method for Cox Proportional Hazards Model in Data with Long-term Survival

Cox PH – Taylor expansion adjustment for Long-term survival data

Description

An adjustment for Cox hazard ratio and an estimation for difference in proportions.

Usage

adjustment(
  HR_cox,
  HR_cox_CI,
  s1mix.chosen,
  s0mix.chosen,
  pi1.est,
  pi0.est,
  m = NULL,
  cure.show = TRUE
)

Arguments

HR_cox	Input. Hazard ratio obtained from Cox PH model.
HR_cox_CI	Input. Confidence interval of the hazard ratio obtained from Cox PH model.
s1mix.chosen	Input. Survival probabilities of Arm 1 estimated by KM at the chosen time.
s0mix.chosen	Input. Survival probabilities of Arm 0 estimated by KM at the chosen time.
pi1.est	Input. Proportion of short-term survivors (uncured proportion) in Arm 1.
pi0.est	Input. Proportion of long-term survivors (uncured proportion) in Arm 0.
m	Input (Optional). The polynomial order used in Taylor approximation. m is selected automatically if m = NULL (default).
cure.show	Input (Optional). Indicate whether or not to show the estimated proportions of long-term survivors The default is TRUE.

Value

Adj.before.after	Results before and after Cox-TEL adjustment: Cox HR, Cox-TEL HR, and Cox-TEL DP.
Proportion.LTS	Estimated proportions of long-term survivors with confidence intervals.

References

C.Y. Hsu, E.P.Y. Lin and Y Shyr. (2021). Development and Evaluation of a Method to Correct Misinterpretation of Clinical Trial Results With Long-term Survival. JAMA Oncol. doi:10.1001/jamaoncol.2021.0289.

Examples

library(CoxTEL)
s1mix.chosen <- c(0.48,0.39,0.35,0.35)
s0mix.chosen <- c(0.36,0.28,0.26,0.25)
pi1.est <- 0.65; pi0.est <- 0.75 # Proportion of short-term survivors
HR_cox <- 0.71; HR_cox_CI <- c(0.51, 0.91)
adjustment(HR_cox, HR_cox_CI, s1mix.chosen, s0mix.chosen, pi1.est, pi0.est)

cyhsuTN/AdjCOXPH documentation built on July 4, 2024, 8:05 p.m.