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(v0.6.1.9046) ggplot fix

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dr. M.S. (Matthijs) Berends
2019-05-31 20:25:57 +02:00
parent f03f71eced
commit 4ed27c7e7a
15 changed files with 287 additions and 191 deletions
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NEWS.md
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@ -22,6 +22,9 @@
system.file("translations.tsv", package = "AMR")
```
Please create an issue in one of our repositories if you want additions in this file.
* Improvements to plotting AMR results with `ggplot_rsi()`:
* New parameter `colours` to set the bar colours
* New parameters `title`, `subtitle`, `caption`, `x.title` and `y.title` to set titles and axis descriptions
* Improved intelligence of looking up antibiotic tables in data set using `guess_ab_col()`
* Added ~5,000 more old taxonomic names to the `microorganisms.old` data set, which leads to better results finding when using the `as.mo()` function
* This package now honours the new EUCAST insight (2019) that S and I are but classified as susceptible, where I is defined as 'increased exposure' and not 'intermediate' anymore. For functions like `portion_df()` and `count_df()` this means that their new parameter `combine_SI` is TRUE at default.
@ -50,6 +53,7 @@
* Function `as.mo()` now gently interprets any number of whitespace characters (like tabs) as one space
* Small algorithm fix for `as.mo()`
* Removed viruses from data set `microorganisms.codes` and cleaned it up
* Fix for `mo_shortname()` where species would not be determined correctly
#### Other
* Support for R 3.6.0