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Please visit our comprehensive package websitehttps://amr-for-r.orgto read more about this package, including many examples and tutorials.

Overview:

• Provides anall-in-one solution for antimicrobial resistance (AMR)data analysis in a One Health approach
• Peer-reviewed, used in over 175 countries, available in 28 languages
• Generatesantibiograms - traditional, combined, syndromic, andeven WISCA
• Provides thefull microbiological taxonomy of ~79 000 distinctspecies and extensive info of ~620 antimicrobial drugs
• AppliesCLSI 2011-2025 andEUCAST 2011-2025 clinical andveterinary breakpoints, and ECOFFs, for MIC and disk zoneinterpretation
• Corrects for duplicate isolates,calculates andpredicts AMRper antimicrobial class
• Integrates withWHONET, ATC,EARS-Net, PubChem,LOINC,SNOMED CT, andNCBI
• 100% free of costs and dependencies, highly suitable for places withlimited resources

TheAMR package is a peer-reviewed, free and open-source R packagewith zero dependencies to simplify the analysis and prediction ofAntimicrobial Resistance (AMR) and to work with microbial andantimicrobial data and properties, by using evidence-based methods.Our aim is to provide a standard for clean and reproducible AMR dataanalysis, that can therefore empower epidemiological analyses tocontinuously enable surveillance and treatment evaluation in anysetting.

TheAMR package supports and can read any data format, includingWHONET data. This package works on Windows, macOS and Linux with allversions of R since R-3.0 (April 2013).It was designed to work in anysetting, including those with very limited resources. It was createdfor both routine data analysis and academic research at the Faculty ofMedical Sciences of theUniversity of Groningenand theUniversity Medical Center Groningen.

To install the latest ‘release’ version from CRAN:

install.packages("AMR")

To install the latest ‘beta’ version:

install.packages("AMR",repos="beta.amr-for-r.org")

If this does not work, try to install directly from GitHub using theremotes package:

remotes::install_github("msberends/AMR")

This AMR package for R is free, open-source software andlicensed under theGNU General Public License v2.0(GPL-2). These requirementsare consequently legally binding: modifications must be released underthe same license when distributing the package, changes made to the codemust be documented, source code must be made available when the packageis distributed, and a copy of the license and copyright notice must beincluded with the package.