shiny AMR analysis tool (sAMRat)

An Open Source Shiny Application that uses the AMR package to facilitate Antimicrobial Resistance Data Analysis and Reporting. Free, smart and for everyone.

Description

The Application depends on the AMR package to perform data analysis on microbiological data. It provides an interactive interface to upload datasets, map them to the AMR package structure, and generate various reports and visualizations.

It is still in active development, and new features will be added over time. Feel free to contribute or suggest new functionalities!

Installation

For now there is no CRAN release of the package yet, so you will need to install by cloning the repository.

Via cloning the repository

Alternatively, you can set up the package by cloning the repository through your terminal/shell:

git clone https://github.com/Gero1999/sAMRat

and then loading it directly using devtools in your IDE (e.g. RStudio) console:

if (!requireNamespace("devtools", quietly = FALSE)) {
  install.packages("devtools")
}
devtools::load_all()

Quick start

To run the application, simply invoke:

devtools::load_all()
shiny::runApp(system.file("shiny/app.R", package = "sAMRat"))

Contributing

The project is in an early stage and highly open to spontaneous or active contributors! Check our contributing guidelines.

Documentation and references

• Visit our Website for comprehensive documentation, tutorials, and guides.
• The main package the App depends on is AMR. You can find more of it on its website