AMR (for R)

Not a developer? Then please visit our website to read about this package.

It contains documentation about all of the included functions and also a comprehensive tutorial about how to conduct AMR analysis.

Development source

NOTE: the original source code is on GitLab (, so you can report a bug at There is a mirror repository on GitHub ( As the mirror process is automated by GitLab, both repositories always contain the latest changes.

This is the development source of AMR, a free and open-source R package to simplify the analysis and prediction of Antimicrobial Resistance (AMR) and to work with microbial and antimicrobial properties by using evidence-based methods.


Matthijs S. Berends 1,2,a, Christian F. Luz 1,a, Erwin E.A. Hassing2, Corinna Glasner 1,b, Alex W. Friedrich 1,b, Bhanu N.M. Sinha 1,b

1 Department of Medical Microbiology, University of Groningen, University Medical Center Groningen, Groningen, the Netherlands - 2 Certe Medical Diagnostics & Advice, Groningen, the Netherlands - a Thesis dissertant b Thesis advisor

How to get this package

All stable versions of this package are published on CRAN, the official R network with a peer-reviewed submission process.

Install from CRAN

CRAN_Badge CRAN_Downloads

(Note: Downloads measured only by, this excludes e.g. the official

Install from Zenodo


This package was also published on Zenodo (stable releases only):

Install from GitLab

This is the latest development version. Although it may contain bugfixes and even new functions compared to the latest released version on CRAN, it is also subject to change and may be unstable or behave unexpectedly. Always consider this a beta version. All below 'badges' should be green:

Development Test | Result | Reference --- | :---: | --- All functions checked on Linux | pipeline status | GitLab CI [ref 1] All functions checked on Windows | AppVeyor_Build | Appveyor Systems Inc. [ref 2] Percentage of syntax lines checked | Code_Coverage | Codecov LLC [ref 3]

If so, try it with:



This R package is licensed under the GNU General Public License (GPL) v2.0. In a nutshell, this means that this package:

msberends/AMR documentation built on Feb. 15, 2019, 3:43 a.m.