get_ecd_values: Get empirical cumulative distribution values of pval or...

In openpharma/simaerep: Find Clinical Trial Sites Under-Reporting Adverse Events

Get empirical cumulative distribution values of pval or prob_lower

Description

Test function, test applicability of poisson test, by calculating

• the bootstrapped probability of obtaining a specific p-value or lower, use in combination with sim_studies().

Usage

get_ecd_values(df_sim_studies, df_sim_sites, val_str)

Arguments

df_sim_studies	dataframe, generated by sim_studies()
df_sim_sites	dataframe, generated by sim_sites()
val_str	c("prob_low","pval")

Details

trains a ecdf function for each studies based on the results of sim_studies()

Value

dataframe with the following columns:

study_id

study identification

site_number

site identification

visit_med75

median(max(visit)) * 0.75

mean_ae_site_med75

mean AE at visit_med75 site level

mean_ae_study_med75

mean AE at visit_med75 study level

pval/prob_low

p-value as returned by poisson.test

pval/prob_low_ecd

p-value as returned by poisson.test

Examples

df_visit <- sim_test_data_study(n_pat = 100, n_sites = 5,
    frac_site_with_ur = 0.4, ur_rate = 0.3)

df_visit$study_id <- "A"
df_site <- site_aggr(df_visit)

df_sim_sites <- sim_sites(df_site, df_visit, r = 100)

df_sim_studies <- sim_studies(
  df_site = df_site,
  df_visit = df_visit,
  r = 3,
  parallel = FALSE,
  poisson_test = TRUE,
  prob_lower = TRUE
)

get_ecd_values(df_sim_studies, df_sim_sites, "prob_low")
get_ecd_values(df_sim_studies, df_sim_sites, "pval")

openpharma/simaerep documentation built on Feb. 2, 2025, 12:04 a.m.