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# The `AMR` Package for R <a href="https://msberends.github.io/AMR/"><img src="./logo.svg" align="right" height="139" /></a>
# The `AMR` Package for R <a href="https://amr-for-r.org/"><img src="./logo.svg" align="right" height="139" /></a>
* Provides an **all-in-one solution** for antimicrobial resistance (AMR) data analysis in a One Health approach
* Used in over 175 countries, available in 20 languages
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> Now available for Python too! [Click here](./articles/AMR_for_Python.html) to read more.
<div style="display: flex; font-size: 0.8em;">
<p style="text-align:left; width: 50%;"><small><a href="https://msberends.github.io/AMR/">https://msberends.github.io/AMR</a></small></p>
<p style="text-align:left; width: 50%;"><small><a href="https://amr-for-r.org/">https://amr-for-r.org</a></small></p>
<p style="text-align:right; width: 50%;"><small><a href="https://doi.org/10.18637/jss.v104.i03" target="_blank">https://doi.org/10.18637/jss.v104.i03</a></small></p>
</div>
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#### Filtering and selecting data
One of the most powerful functions of this package, aside from calculating and plotting AMR, is selecting and filtering based on antimicrobial columns. This can be done using the so-called [antimicrobial selectors](https://msberends.github.io/AMR/reference/antimicrobial_selectors.html), which work in base R, `dplyr` and `data.table`.
One of the most powerful functions of this package, aside from calculating and plotting AMR, is selecting and filtering based on antimicrobial columns. This can be done using the so-called [antimicrobial selectors](https://amr-for-r.org/reference/antimicrobial_selectors.html), which work in base R, `dplyr` and `data.table`.
```r
# AMR works great with dplyr, but it's not required or neccesary
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|ICU | 0.2902655 | 0.253-0.33 | 0.4004739 | 0.353-0.449 |
|Outpatient | 0.2000000 | 0.131-0.285 | 0.3676471 | 0.254-0.493 |
Or use [antimicrobial selectors](https://msberends.github.io/AMR/reference/antimicrobial_selectors.html) to select a series of antibiotic columns:
Or use [antimicrobial selectors](https://amr-for-r.org/reference/antimicrobial_selectors.html) to select a series of antibiotic columns:
```r
library(AMR)
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Please read our [Developer Guideline here](https://github.com/msberends/AMR/wiki/Developer-Guideline).
The latest and unpublished development version can be installed from the [rOpenSci R-universe platform](https://msberends.r-universe.dev/AMR):
To install the latest and unpublished development version:
```r
install.packages("AMR", repos = "https://msberends.r-universe.dev")
install.packages("AMR", repos = "beta.amr-for-r.org")
```
### Get started
To find out how to conduct AMR data analysis, please [continue reading here to get started](./articles/AMR.html) or click a link in the ['How to' menu](https://msberends.github.io/AMR/articles/).
To find out how to conduct AMR data analysis, please [continue reading here to get started](./articles/AMR.html) or click a link in the ['How to' menu](https://amr-for-r.org/articles/).
### Partners