create vignette AE

grstat.Rproj

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 Version: 1.0
-ProjectId: d350bac8-4795-42a0-a32d-ccb93a467950
 
 RestoreWorkspace: No
 SaveWorkspace: No

vignettes/ae_grade.Rmd

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+---
+title: "Adverse Event (AE)"
+output: 
+  rmarkdown::html_vignette:
+    number_sections: true
+vignette: >
+  %\VignetteEngine{knitr::rmarkdown}
+  %\VignetteEncoding{UTF-8}
+date: "2025-01-30"
+
+---
+
+<!-- https://oncostat.github.io/grstat/articles/adverse_events_sas.html -->
+
+# Data
+
+The function grstat_example() is used as an example dataset to illustrate the data usage.
+
+This analysis focuses on two datasets:
+
+- ae, which contains data on adverse events.
+
+- enrolres, which includes all patients and their respective treatment arms."
+
+```{r setup}
+library(grstat)
+library(flextable)
+library(dplyr)
+```
+
+
+```{r}
+# #| label: "setup"
+# #| message: false
+# #| warning: false
+# library(grstat)
+# library(flextable)
+# library(dplyr)
+
+tm = grstat_example()
+attach(tm)
+
+head(ae)
+
+head(enrolres)
+
+```
+# Tables Grade
+
+create table adverse event grades by using  ae_table_grade()
+
+## Table of maximum grades per patient
+
+```{r}
+ae_table_grade(df_ae=ae, df_enrol=enrolres, arm=NULL, variant="max") %>% 
+  as_flextable(header_show_n=TRUE) %>%
+  # comment tu peux changer la size des footnotes?
+  add_footer_lines("Percentages reflect the proportion of patients whose maximum AE grade was as indicated.")
+```
+
+## Table of maximum grades per patient by arms
+
+```{r}
+ae_table_grade(df_ae=ae, df_enrol=enrolres, arm="arm", variant="max") %>% 
+  as_flextable(header_show_n=TRUE) %>% 
+  add_footer_lines("Percentages reflect the proportion of patients presenting at most one AE of given grade")
+```
+
+## Table of all grades per patient 
+
+```{r}
+ae_table_grade(df_ae=ae, df_enrol=enrolres, arm=NULL, variant="eq") %>% 
+  as_flextable(header_show_n=TRUE) %>% 
+  add_footer_lines("Percentages reflect the proportion of patients presenting at least one AE of given grade")
+```
+
+## Table of all grades per patient by arms
+
+```{r}
+ae_table_grade(df_ae=ae, df_enrol=enrolres, arm="arm", variant="eq") %>% 
+  as_flextable(header_show_n=TRUE) %>% 
+  add_footer_lines("Percentages reflect the proportion of patients presenting at least one AE of given grade")
+```
+