safetyGraphics: Clinical Trial Safety Graphics with R

The safetyGraphics package provides a framework for evaluation of clinical trial safety in R. The initial release focuses on Evaluation of Drug-Induced Serious Hepatotoxicity (eDISH). A prototype of the eDish interactive graphic is available here and is shown below.

This package is being built in conjunction with the safety-eDISH javascript library. Both packages are under active development with beta testing and an initial release planned for early 2019.

Usage

Users can interactively explore their data with a shiny application or create standalone interactive charts.

Shiny application

The Shiny app provides a simple interface for:

• Loading data
• Customizing settings and data mappings
• Viewing and exporting the interactive graphics

devtools::install_github("ASA-DIA-InteractiveSafetyGraphics/safetyGraphics")
library("safetyGraphics")
chartBuilderApp() #open the shiny application

Standalone charts

Users can also initialize customized standalone charts with a few lines of code.

devtools::install_github("ASA-DIA-InteractiveSafetyGraphics/safetyGraphics")
library("safetyGraphics")
eDISH(data=adlbc, 
      id_col = "USUBJID",
      value_col = "AVAL", 
      measure_col = "PARAM", 
      visit_col = "VISIT",
      visitn_col = "VISITNUM", 
      studyday_col = "ADY",
      normal_col_low = "A1LO", 
      normal_col_high = "A1HI", 
      measure_values = list(ALT = "Alanine Aminotransferase (U/L)",
                            AST = "Aspartate Aminotransferase (U/L)",
                            TB = "Bilirubin (umol/L)",
                            ALP = "Alkaline Phosphatase (U/L)"))