mirror of
https://github.com/msberends/AMR.git
synced 2024-12-25 07:26:12 +01:00
add news
This commit is contained in:
parent
510140fc55
commit
ac55aa84de
@ -1,5 +1,5 @@
|
||||
Package: AMR
|
||||
Version: 1.8.2.9056
|
||||
Version: 1.8.2.9057
|
||||
Date: 2022-12-09
|
||||
Title: Antimicrobial Resistance Data Analysis
|
||||
Description: Functions to simplify and standardise antimicrobial resistance (AMR)
|
||||
|
13
NEWS.md
13
NEWS.md
@ -1,4 +1,4 @@
|
||||
# AMR 1.8.2.9056
|
||||
# AMR 1.8.2.9057
|
||||
|
||||
This version will eventually become v2.0! We're happy to reach a new major milestone soon!
|
||||
|
||||
@ -44,14 +44,15 @@ This version will eventually become v2.0! We're happy to reach a new major miles
|
||||
* Our data sets are now also continually exported to **Apache Feather and Apache Parquet formats**. You can find more info [in this article on our website](https://msberends.github.io/AMR/articles/datasets.html).
|
||||
* Support for using antibiotic selectors in scoped `dplyr` verbs (with or without `vars()`), such as in: `... %>% summarise_at(aminoglycosides(), resistance)`, see `resistance()`
|
||||
|
||||
### Changed
|
||||
* Fixes and changes for using `as.rsi()`:
|
||||
* On certain EUCAST breakpoints for MIC values
|
||||
* On `NA` values (e.g. `as.rsi(as.disk(NA), ...)`)
|
||||
* On bug-drug combinations with multiple breakpoints for different body sites
|
||||
### Changes
|
||||
* For `as.rsi()`:
|
||||
* Fixed certain EUCAST breakpoints for MIC values
|
||||
* Allow `NA` values (e.g. `as.rsi(as.disk(NA), ...)`)
|
||||
* Fix for bug-drug combinations with multiple breakpoints for different body sites
|
||||
* Interpretation from MIC and disk zones is now more informative about availability of breakpoints and more robust
|
||||
* The default guideline (EUCAST) can now be changed with `options(AMR_guideline = "...")`
|
||||
* Removed the `as.integer()` method for MIC values, since MIC are not integer values and running `table()` on MIC values consequently failed for not being able to retrieve the level position (as that's how normally `as.integer()` on `factor`s work)
|
||||
* Fixed determination of Gram stains (`mo_gramstain()`), since the taxonomic phyla Actinobacteria, Chloroflexi, Firmicutes, and Tenericutes have been renamed to respectively Actinomycetota, Chloroflexota, Bacillota, and Mycoplasmatota in 2021
|
||||
* `droplevels()` on MIC will now return a common `factor` at default and will lose the `mic` class. Use `droplevels(..., as.mic = TRUE)` to keep the `mic` class.
|
||||
* Small fix for using `ab_from_text()`
|
||||
* Fixes for reading in text files using `set_mo_source()`, which now also allows the source file to contain valid taxonomic names instead of only valid microorganism ID of this package
|
||||
|
Loading…
Reference in New Issue
Block a user