h_tbl_coxph_pairwise: Helper function for generating a pairwise Cox-PH table

In tern: Create Common TLGs Used in Clinical Trials

Helper function for generating a pairwise Cox-PH table

Description

Create a data.frame of pairwise stratified or unstratified Cox-PH analysis results.

Usage

h_tbl_coxph_pairwise(
  df,
  variables,
  ref_group_coxph = NULL,
  control_coxph_pw = control_coxph(),
  annot_coxph_ref_lbls = FALSE
)

Arguments

df	(data.frame) data set containing all analysis variables.
variables	(named list) variable names. Details are: tte (numeric) variable indicating time-to-event duration values. is_event (logical) event variable. TRUE if event, FALSE if time to event is censored. arm (factor) the treatment group variable. strata (character or NULL) variable names indicating stratification factors.
ref_group_coxph	(string or NULL) level of arm variable to use as reference group in calculations for annot_coxph table. If NULL (default), uses the first level of the arm variable.
control_coxph_pw	(list) parameters for comparison details, specified using the helper function control_coxph(). Some possible parameter options are: pval_method (string) p-value method for testing hazard ratio = 1. Default method is "log-rank", can also be set to "wald" or "likelihood". ties (string) method for tie handling. Default is "efron", can also be set to "breslow" or "exact". See more in survival::coxph() conf_level (proportion) confidence level of the interval for HR.
annot_coxph_ref_lbls	(flag) whether the reference group should be explicitly printed in labels for the annot_coxph table. If FALSE (default), only comparison groups will be printed in annot_coxph table labels.

Value

A data.frame containing statistics HR, ⁠XX% CI⁠ (XX taken from control_coxph_pw), and p-value (log-rank).

Examples

library(dplyr)

adtte <- tern_ex_adtte %>%
  filter(PARAMCD == "OS") %>%
  mutate(is_event = CNSR == 0)

h_tbl_coxph_pairwise(
  df = adtte,
  variables = list(tte = "AVAL", is_event = "is_event", arm = "ARM"),
  control_coxph_pw = control_coxph(conf_level = 0.9)
)

tern documentation built on Sept. 24, 2024, 9:06 a.m.