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(v0.9.0.9014) Machine reading guidelines

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dr. M.S. (Matthijs) Berends
2020-01-27 11:05:39 +01:00
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NEWS.md
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# AMR 0.9.0.9013
## <small>Last updated: 26-Jan-2020</small>
# AMR 0.9.0.9014
## <small>Last updated: 27-Jan-2020</small>
### New
* Support for LOINC codes in the `antibiotics` data set. Use `ab_loinc()` to retrieve LOINC codes, or use LOINC code for input in any `ab_*` function:
* Support for LOINC codes in the `antibiotics` data set. Use `ab_loinc()` to retrieve LOINC codes, or use a LOINC code for input in any `ab_*` function:
```r
ab_loinc("ampicillin")
#> [1] "21066-6" "3355-5" "33562-0" "33919-2" "43883-8" "43884-6" "87604-5"
ab_name("21066-6")
#> [1] "Ampicillin"
ab_atc("21066-6")
#> [1] "J01CA01"
```
* The repository of this package now contains a clean version of the EUCAST and CLSI guidelines from 2011-2019 to translate MIC and disk diffusion values to R/SI: https://gitlab.com/msberends/AMR/blob/master/data-raw/rsi_translation.txt. This **allows machine reading these guidelines**, which is currently almost impossible with the Excel and PDF files distributed by EUCAST and CLSI. This file is updated automatically.
### Changes
* Bugfix for some WHONET microorganism codes that were not interpreted correctly when using `as.rsi()`
* Speed improvement for `as.mo()` (and consequently all `mo_*` functions that use `as.mo()` internally), especially for the *G. species* format (G for genus), like *E. coli* and *K penumoniae*
* Better support for determination of *Salmonella* biovars
* Input values for `as.disk()` limited to a maximum of 50 millimeters