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eucast update

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dr. M.S. (Matthijs) Berends
2018-11-01 20:23:33 +01:00
parent f7687557c9
commit 5476fecc73
16 changed files with 82 additions and 69 deletions
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NEWS.md
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@@ -13,6 +13,7 @@
* Better error handling when rules cannot be applied (i.e. new values could not be inserted)
* The number of affected values will now only be measured once per row/column combination
* Data set `septic_patients` now reflects these changes
* Added parameter `pipe` for piperacillin (J01CA12), also to the `MDRO` function
* Small fixes to EUCAST clinical breakpoint rules
* Tremendous speed improvement for `as.mo` (and subsequently all `mo_*` functions), as empty values wil be ignored *a priori*
* Fewer than 3 characters as input for `as.mo` will return NA
@@ -22,11 +23,11 @@
* Using `portion_*` functions now throws a warning when total available isolate is below parameter `minimum`
* Functions `as.mo`, `as.rsi`, `as.mic`, `as.atc` and `freq` will not set package name as attribute anymore
* Frequency tables - `freq()`:
* Check for `hms::is.hms` in frequency tables (`freq()`)
* Check for `hms::is.hms`
* Now prints in markdown at default in non-interactive sessions
* No longer adds the factor level column and sorts factors on count again
* Gained `na` parameter, to choose with character to print for empty values
* Support for class `difftime`
* New parameter `na`, to choose with character to print for empty values
* New parameter `header` to turn it off (default when `markdown = TRUE`)
* New parameter `title` to replace the automatically set title
* `first_isolate` now tries to find columns to use as input when parameters are left blank