P281424/AMR
1
0
Fork 0
mirror of https://github.com/msberends/AMR.git synced 2025-07-20 21:33:14 +02:00
Code Releases Activity

(v2.1.1.9289) unit test fix

Browse Source
This commit is contained in:
dr. M.S. (Matthijs) Berends
2025-06-01 16:00:12 +02:00
parent 46f80b1378
commit d384b492cf
6 changed files with 17 additions and 4 deletions
Download Patch File Download Diff File Expand all files Collapse all files

7
man/antimicrobials.Rd
View File

@ -3,6 +3,7 @@
\docType{data}
\name{antimicrobials}
\alias{antimicrobials}
\alias{antibiotics}
\alias{antivirals}
\title{Data Sets with 617 Antimicrobial Drugs}
\format{
@ -49,6 +50,8 @@ LOINC:
}
}
An object of class \code{deprecated_amr_dataset} (inherits from \code{tbl_df}, \code{tbl}, \code{data.frame}) with 497 rows and 14 columns.
An object of class \code{tbl_df} (inherits from \code{tbl}, \code{data.frame}) with 120 rows and 11 columns.
}
\source{
@ -61,10 +64,14 @@ An object of class \code{tbl_df} (inherits from \code{tbl}, \code{data.frame}) w
\usage{
antimicrobials
antibiotics
antivirals
}
\description{
Two data sets containing all antimicrobials and antivirals. Use \code{\link[=as.ab]{as.ab()}} or one of the \code{\link[=ab_property]{ab_*}} functions to retrieve values from the \link{antimicrobials} data set. Three identifiers are included in this data set: an antimicrobial ID (\code{ab}, primarily used in this package) as defined by WHONET/EARS-Net, an ATC code (\code{atc}) as defined by the WHO, and a Compound ID (\code{cid}) as found in PubChem. Other properties in this data set are derived from one or more of these codes. Note that some drugs have multiple ATC codes.
\strong{The \code{antibiotics} data set has been renamed to \code{antimicrobials}. The old name will be removed in a future version.}
}
\details{
Properties that are based on an ATC code are only available when an ATC is available. These properties are: \code{atc_group1}, \code{atc_group2}, \code{oral_ddd}, \code{oral_units}, \code{iv_ddd} and \code{iv_units}. Do note that ATC codes are not unique. For example, J01CR02 is officially the ATC code for "amoxicillin and beta-lactamase inhibitor". Consequently, these two items from the \link{antimicrobials} data set both return \code{"J01CR02"}: