Closed msberends closed 1 year ago
This method is not reproducible for us: step II requires sorting and availability of the data. Furthermore, it is unknown what is meant with "the less commonly used agent".
It seems safer to just copy their table, which unfortunately only contains 123 agents, much less than the ~450 that are in the antibiotics
data set.
It's horrible, we're not complying with EUCAST regarding their methodologically unsound method to abbreviate antibiotics.
So these codes will not be added to the antibiotics
data sets. Users can use the add_custom_antimicrobials()
function to add own codes.
See https://www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Disk_test_documents/Disk_abbreviations/EUCAST_system_for_antimicrobial_abbreviations.pdf for reference.
[ ] Add the rules to column
eucast
in theantibiotics
data set:[ ] Build into
as.ab()
[ ] Return message or warning if an AB code matches both EUCAST and EARS-Net/WHONET (which will happen a lot...)