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(v1.7.1.9001) unit tests

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dr. M.S. (Matthijs) Berends
2021-06-05 15:12:01 +02:00
parent 1908e7cc7a
commit 683a0e748a
21 changed files with 45 additions and 31 deletions
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NEWS.md
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# `AMR` 1.7.1.9000
## <small>Last updated: 4 June 2021</small>
# `AMR` 1.7.1.9001
## <small>Last updated: 5 June 2021</small>
### Changed
* Added more antibiotic class selectors, such as `lincosamides()` and `lipoglycopeptides()`
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# `AMR` 1.7.1
### Breaking change
* Support for CLSI 2020 guideline for interpreting MICs and disk diffusion values (using `as.rsi()`)
* All antibiotic class selectors (such as `carbapenems()`, `aminoglycosides()`) can now be used for filtering as well, making all their accompanying `filter_*()` functions redundant (such as `filter_carbapenems()`, `filter_aminoglycosides()`). These functions are now deprecated and will be removed in a next release. Examples of how the selectors can be used for filtering:
```r
# select columns with results for carbapenems
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```
### New
* Support for CLSI 2020 guideline for interpreting MICs and disk diffusion values (using `as.rsi()`)
* Function `custom_eucast_rules()` that brings support for custom AMR rules in `eucast_rules()`
* Function `italicise_taxonomy()` to make taxonomic names within a string italic, with support for markdown and ANSI
* Support for all four methods to determine first isolates as summarised by Hindler *et al.* (doi: [10.1086/511864](https://doi.org/10.1086/511864)): isolate-based, patient-based, episode-based and phenotype-based. The last method is now the default.