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new MOs, cleanup

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dr. M.S. (Matthijs) Berends
2018-09-01 21:19:46 +02:00
parent 5965d3c794
commit 75fe4d401f
20 changed files with 166 additions and 179 deletions
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4
NEWS.md
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@ -15,7 +15,7 @@
* Introduction to AMR as a vignette
#### Changed
* Added 182 microorganisms to the `microorganisms` data set, now *n* = 2,646 (2,207 bacteria, 285 fungi/yeasts, 153 parasites, 1 other)
* Added 226 microorganisms to the `microorganisms` data set and removed the few viruses it contained, now *n* = 2,664 (2,225 bacteria, 285 fungi/yeasts, 153 parasites, 1 other)
* Added three antimicrobial agents to the `antibiotics` data set: Terbinafine (D01BA02), Rifaximin (A07AA11) and Isoconazole (D01AC05)
* Added 163 trade names to the `antibiotics` data set, it now contains 298 different trade names in total, e.g.:
```r
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```
* Function `ratio` is now deprecated and will be removed in a future release, as it is not really the scope of this package
* Fix for `as.mic` for values ending in zeroes after a real number
* Huge speed improvement for `as.bactid` (now `as.mo`)
* Tremendous speed improvement for `as.bactid` (now `as.mo`)
* Added parameters `minimum` and `as_percent` to `portion_df`
* Support for quasiquotation in the functions series `count_*` and `portions_*`, and `n_rsi`. This allows to check for more than 2 vectors or columns.
```r