Signal detection for the adverse reaction of pancreatitis in vedolizumab use
The following steps will allow you to run analyse_vedol_panc.R to reproduce Table 2 and Figure 1 of
Duszynski et al. (2022):
- Make sure you have R and RStudio installed.
- Download the
vedol_panc.zipfile (on the repo page: greenCodebutton->Download ZIPbutton). - Unzip the download.
- Double click the
vedol_panc.Rprojfile - this should open an RStudio session. - (only has to be performed once) Make sure the prerequisite packages are installed by running the below command in the R console:
install.packages(
c(
"arrow", "dplyr", "tibble",
"ggplot2", "knitr", "tidyr"
)
)
# install pharmsignal package from github
# NOTE: devtools package needs to be installed - please see
# https://www.r-project.org/nosvn/pandoc/devtools.html
devtools::install_github('tystan/pharmsignal')- Now the code is ready to be run:
- Open the
analyse_vedol_panc.Rfile by clicking onFilestab in theFiles/Plots/Packages/...pane of RStudio. - Now to finally run the code in
analyse_vedol_panc.Rin the R console.
- Open the
Table 2: Signal detection estimates and 95% confidence intervals (RSIC = 2^IC using BCPNN MCMC) of vedolizumab v other comparators for pancreatitis
|Comparator | N vedol and panc| N vedol| N comparator and panc| N comparator|RSIC = 2^IC |
|:----------------|----------------:|-------:|---------------------:|------------:|:------------------|
|(1) All | 124| 19034| 21272| 7067209|2.15 (1.79, 2.54)* |
|(2) mAbs | 124| 19034| 1550| 558201|2.24 (1.87, 2.63)* |
|(3) IRAs | 124| 19034| 78| 35486|1.75 (1.56, 1.94) |
|(4) All IBD indi | 96| 14797| 824| 125466|0.99 (0.81, 1.18) |
|(4a) CD indi | 40| 7885| 537| 89236|0.86 (0.62, 1.12) |
|(4b) CU indi | 52| 6538| 265| 35658|1.06 (0.81, 1.33) |
Figure 1: Signal detection estimates and 95% confidence intervals (RSIC = 2^IC using BCPNN MCMC) of vedolizumab v other comparators for pancreatitis.
React
Typescript
Django
Laravel
Facebook
Microsoft
Google
Alibaba
D3
Tencent