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(v1.4.0.9020) mo_is_intrinsic_resistant

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dr. M.S. (Matthijs) Berends
2020-11-16 11:03:24 +01:00
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NEWS.md
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# AMR 1.4.0.9019
## <small>Last updated: 12 November 2020</small>
# AMR 1.4.0.9020
## <small>Last updated: 16 November 2020</small>
### New
* Functions `is_gram_negative()` and `is_gram_positive()` as wrappers around `mo_gramstain()`. They always return `TRUE` or `FALSE` (except when the input is `NA` or the MO code is `UNKNOWN`), thus always return `FALSE` for species outside the taxonomic kingdom of Bacteria. If you have the `dplyr` package installed, they can even determine the column with microorganisms themselves inside `dplyr` functions:
* Functions `mo_is_gram_negative()` and `mo_is_gram_positive()` as wrappers around `mo_gramstain()`. They always return `TRUE` or `FALSE` (except when the input is `NA` or the MO code is `UNKNOWN`), thus always return `FALSE` for species outside the taxonomic kingdom of Bacteria. If you have the `dplyr` package installed, they can even determine the column with microorganisms themselves when used inside `dplyr` verbs:
```r
example_isolates %>%
filter(is_gram_positive())
#> NOTE: Using column `mo` as input for 'x'
filter(mo_is_gram_positive())
#> NOTE: Using column `mo` as input for mo_is_gram_positive()
```
* Function `mo_is_intrinsic_resistant()` to test for intrinsic resistance, based on [EUCAST Intrinsic Resistance and Unusual Phenotypes v3.2](https://www.eucast.org/expert_rules_and_intrinsic_resistance/) from 2020. As with the new `mo_is_gram_*()` functions, if you have the `dplyr` package installed the column with microorganisms will be automatically determined when used inside `dplyr` verbs:
```r
example_isolates %>%
filter(mo_is_intrinsic_resistant(ab = "Vancomycin"))
#> NOTE: Using column `mo` as input for mo_is_intrinsic_resistant()
```
* Functions `%not_like%` and `%not_like_case%` as wrappers around `%like%` and `%like_case%`. The RStudio addin to insert the text " %like% " as provided in this package now iterates over all like variants. So if you have defined the keyboard shortcut Ctrl/Cmd + L to this addin, it will first insert ` %like% ` and by pressing it again it will be replaced with ` %not_like% `, etc.