P281424/AMR
1
0
Fork 0
mirror of https://github.com/msberends/AMR.git synced 2025-09-08 01:29:38 +02:00
Code Releases Activity

(v3.0.0.9026) fix tidymodels doc

Browse Source
This commit is contained in:
dr. M.S. (Matthijs) Berends
2025-09-04 15:03:28 +02:00
parent c1c49fa463
commit d5a568318b
3 changed files with 12 additions and 2 deletions
Download Patch File Download Diff File Expand all files Collapse all files

2
DESCRIPTION
View File

@@ -1,5 +1,5 @@
Package: AMR Package: AMR
Version: 3.0.0.9025 Version: 3.0.0.9026
Date: 2025-09-04 Date: 2025-09-04
Title: Antimicrobial Resistance Data Analysis Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR) Description: Functions to simplify and standardise antimicrobial resistance (AMR)

2
NEWS.md
View File

@@ -1,4 +1,4 @@
# AMR 3.0.0.9025 # AMR 3.0.0.9026
This is a bugfix release following the release of v3.0.0 in June 2025. This is a bugfix release following the release of v3.0.0 in June 2025.

10
vignettes/AMR_with_tidymodels.Rmd
View File

@@ -221,6 +221,12 @@ In this second example, we demonstrate how to use `<mic>` columns directly in `t
This approach and idea formed the basis for the publication [DOI: 10.3389/fmicb.2025.1582703](https://doi.org/10.3389/fmicb.2025.1582703) to model the presence of extended-spectrum beta-lactamases (ESBL). This approach and idea formed the basis for the publication [DOI: 10.3389/fmicb.2025.1582703](https://doi.org/10.3389/fmicb.2025.1582703) to model the presence of extended-spectrum beta-lactamases (ESBL).
> NOTE: THIS EXAMPLE WILL BE AVAILABLE IN A NEXT VERSION (#TODO)
>
> The new AMR package version will contain new tidymodels selectors such as `step_mic_log2()`.
<!--
### **Objective** ### **Objective**
Our goal is to: Our goal is to:
@@ -347,12 +353,16 @@ ggplot(predictions, aes(x = esbl, fill = .pred_class)) +
theme_minimal() theme_minimal()
``` ```
<!--
### **Conclusion** ### **Conclusion**
In this example, we showcased how the new `AMR`-specific recipe steps simplify working with `<mic>` columns in `tidymodels`. The `step_mic_log2()` transformation converts ordered MICs to log2-transformed numerics, improving compatibility with classification models. In this example, we showcased how the new `AMR`-specific recipe steps simplify working with `<mic>` columns in `tidymodels`. The `step_mic_log2()` transformation converts ordered MICs to log2-transformed numerics, improving compatibility with classification models.
This pipeline enables realistic, reproducible, and interpretable modelling of antimicrobial resistance data. This pipeline enables realistic, reproducible, and interpretable modelling of antimicrobial resistance data.
-->
--- ---