doc fix

DESCRIPTION

@@ -1,5 +1,5 @@
 Package: AMR
-Version: 1.8.2.9128
+Version: 1.8.2.9129
 Date: 2023-02-15
 Title: Antimicrobial Resistance Data Analysis
 Description: Functions to simplify and standardise antimicrobial resistance (AMR)

NEWS.md

@@ -1,4 +1,4 @@
-# AMR 1.8.2.9128
+# AMR 1.8.2.9129
 
 *(this beta version will eventually become v2.0! We're happy to reach a new major milestone soon!)*
 

R/antibiogram.R

@@ -102,7 +102,7 @@
 #'                                           "Study Group", "Control Group"))
 #'    ```
 #'
-#' All types of antibiograms can be generated with the functions as described on this page, and can be plotted (using [ggplot2::autoplot()] or base \R [plot()]/[barplot()]) or printed into R Markdown / Quarto formats for reports. Use functions from specific 'table reporting' packages to transform the output of [antibiogram()] to your needs, e.g. `flextable::as_flextable()` or `gt::gt()`.
+#' All types of antibiograms can be generated with the functions as described on this page, and can be plotted (using [ggplot2::autoplot()] or base \R [plot()]/[barplot()]) or printed into R Markdown / Quarto formats for reports using `print()`. Use functions from specific 'table reporting' packages to transform the output of [antibiogram()] to your needs, e.g. `flextable::as_flextable()` or `gt::gt()`.
 #'
 #' Note that for combination antibiograms, it is important to realise that susceptibility can be calculated in two ways, which can be set with the `only_all_tested` argument (defaults to `FALSE`). See this example for two antibiotics, Drug A and Drug B, about how [antibiogram()] works to calculate the %SI:
 #'

index.md

@@ -78,7 +78,7 @@ This base R snippet will work in any version of R since April 2013 (R-3.0).
 
 The `AMR` package supports generating traditional, combined, syndromic, and even weighted-incidence syndromic combination antibiograms (WISCA).
 
-If used inside R Markdown or Quarto, the table will be printed in the right output format automatically (such as markdown, LaTeX, HTML, etc.).
+If used inside R Markdown or Quarto, the table will be printed in the right output format automatically (such as markdown, LaTeX, HTML, etc.) when using `print()` on an antibiogram object.
 
 ```r
 antibiogram(example_isolates,
@@ -111,6 +111,21 @@ antibiogram(example_isolates,
 |Gram-negative (641-693)  |  88|        99|        98|
 |Gram-positive (345-1044) |  86|        98|        95|
 
+Like many other functions in this package, `antibiograms()` comes with support for 20 languages that are often detected automatically based on system language:
+
+```r
+antibiogram(example_isolates,
+            antibiotics = c("CIP", "TOB", "GEN"),
+            mo_transform = "gramstain",
+            ab_transform = "name",
+            language = "uk") # Ukrainian
+```
+
+|Збудник (N min-max)      | Гентаміцин| Тобраміцин| Ципрофлоксацин|
+|:------------------------|----------:|----------:|--------------:|
+|Грамнегативні (684-686)  |         96|         96|             91|
+|Грампозитивні (665-1170) |         63|         34|             77|
+
 
 #### Calculating resistance per group
 

man/antibiogram.Rd

@@ -124,7 +124,7 @@ your_data \%>\%
 }\if{html}{\out{</div>}}
 }
 
-All types of antibiograms can be generated with the functions as described on this page, and can be plotted (using \code{\link[ggplot2:autoplot]{ggplot2::autoplot()}} or base \R \code{\link[=plot]{plot()}}/\code{\link[=barplot]{barplot()}}) or printed into R Markdown / Quarto formats for reports. Use functions from specific 'table reporting' packages to transform the output of \code{\link[=antibiogram]{antibiogram()}} to your needs, e.g. \code{flextable::as_flextable()} or \code{gt::gt()}.
+All types of antibiograms can be generated with the functions as described on this page, and can be plotted (using \code{\link[ggplot2:autoplot]{ggplot2::autoplot()}} or base \R \code{\link[=plot]{plot()}}/\code{\link[=barplot]{barplot()}}) or printed into R Markdown / Quarto formats for reports using \code{print()}. Use functions from specific 'table reporting' packages to transform the output of \code{\link[=antibiogram]{antibiogram()}} to your needs, e.g. \code{flextable::as_flextable()} or \code{gt::gt()}.
 
 Note that for combination antibiograms, it is important to realise that susceptibility can be calculated in two ways, which can be set with the \code{only_all_tested} argument (defaults to \code{FALSE}). See this example for two antibiotics, Drug A and Drug B, about how \code{\link[=antibiogram]{antibiogram()}} works to calculate the \%SI:
 

pkgdown/extra.js

@@ -52,7 +52,7 @@ $(document).ready(function() {
   // add doctoral titles to authors
   function doct_tit(x) {
     if (typeof(x) != "undefined") {
-      x = x.replace(/Author, maintainer/g, "Principle developer");
+      x = x.replace(/Author, maintainer/g, "Principle maintainer");
       x = x.replace(/Author, contributor/g, "Contributing maintainer");
       x = x.replace(/Thesis advisor/g, "(former) Doctoral advisor");
       // contributors