We bundle the recipe and model together into a workflow, -which organises the entire modeling process.
workflow
# Combine the recipe and model into a workflow resistance_workflow <- workflow() %>% @@ -503,7 +503,7 @@ rates by year and ward. Defining the Workflow -We now define the modeling workflow, which consists of a +We now define the modelling workflow, which consists of a preprocessing step, a model specification, and the fitting process. 1. Preprocessing with a Recipe diff --git a/articles/EUCAST.html b/articles/EUCAST.html index ce802981e..2fa060b5b 100644 --- a/articles/EUCAST.html +++ b/articles/EUCAST.html @@ -31,7 +31,7 @@ AMR (for R) - 2.1.1.9237 + 2.1.1.9239 diff --git a/articles/MDR.html b/articles/MDR.html index 200f71384..1202c7f8e 100644 --- a/articles/MDR.html +++ b/articles/MDR.html @@ -31,7 +31,7 @@ AMR (for R) - 2.1.1.9237 + 2.1.1.9239 diff --git a/articles/PCA.html b/articles/PCA.html index a4d6fc6b8..1bab67c0c 100644 --- a/articles/PCA.html +++ b/articles/PCA.html @@ -31,7 +31,7 @@ AMR (for R) - 2.1.1.9237 + 2.1.1.9239 diff --git a/articles/WHONET.html b/articles/WHONET.html index a5f9131d4..48fb91fba 100644 --- a/articles/WHONET.html +++ b/articles/WHONET.html @@ -31,7 +31,7 @@ AMR (for R) - 2.1.1.9237 + 2.1.1.9239 diff --git a/articles/datasets.html b/articles/datasets.html index e979c75b5..44b536c37 100644 --- a/articles/datasets.html +++ b/articles/datasets.html @@ -31,7 +31,7 @@ AMR (for R) - 2.1.1.9237 + 2.1.1.9239 @@ -81,7 +81,7 @@ Data sets for download / own use - 13 April 2025 + 14 April 2025 Source: vignettes/datasets.Rmd datasets.Rmd @@ -412,6 +412,7 @@ all SNOMED codes as comma separated values.
We now define the modeling workflow, which consists of a +
We now define the modelling workflow, which consists of a preprocessing step, a model specification, and the fitting process.
vignettes/datasets.Rmd
datasets.Rmd
(this beta version will eventually become v3.0. We’re happy to reach a new major milestone soon, which will be all about the new One Health support! Install this beta using the instructions here.)
This package now supports not only tools for AMR data analysis in clinical settings, but also for veterinary and environmental microbiology. This was made possible through a collaboration with the University of Prince Edward Island’s Atlantic Veterinary College, Canada. To celebrate this great improvement of the package, we also updated the package logo to reflect this change.
antibiotics
antimicrobials
rsi
sir
resistance_predict()
sir_predict()
tidymodels
as.sir()
breakpoint_type = "animal"
host
ab
mo
uti
as.sir(..., ab = "column1", mo = "column2", uti = "column3")
vctrs
dplyr
bind_rows()
rowwise()
c_across()
mic
AMR
.xpt
This changelog only contains changes from AMR v3.0 (March 2025) and later.