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41 lines
1.9 KiB
R
41 lines
1.9 KiB
R
% Generated by roxygen2: do not edit by hand
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% Please edit documentation in R/data.R
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\docType{data}
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\name{microorganisms.groups}
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\alias{microorganisms.groups}
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\title{Data Set with 534 Microorganisms In Species Groups}
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\format{
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A \link[tibble:tibble]{tibble} with 534 observations and 4 variables:
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\itemize{
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\item \code{mo_group}\cr ID of the species group / microbiological complex
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\item \code{mo}\cr ID of the microorganism belonging in the species group / microbiological complex
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\item \code{mo_group_name}\cr Name of the species group / microbiological complex, as retrieved with \code{\link[=mo_name]{mo_name()}}
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\item \code{mo_name}\cr Name of the microorganism belonging in the species group / microbiological complex, as retrieved with \code{\link[=mo_name]{mo_name()}}
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}
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}
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\usage{
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microorganisms.groups
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}
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\description{
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A data set containing species groups and microbiological complexes, which are used in \link[=clinical_breakpoints]{the clinical breakpoints table}.
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}
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\section{Download Our Reference Data}{
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All reference data sets in the AMR package - including information on microorganisms, antimicrobials, and clinical breakpoints - are freely available for download in multiple formats: R, MS Excel, Apache Feather, Apache Parquet, SPSS, and Stata.
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For maximum compatibility, we also provide machine-readable, tab-separated plain text files suitable for use in any software, including laboratory information systems.
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Visit \href{https://amr-for-r.org/articles/datasets.html}{our website for direct download links}, or explore the actual files in \href{https://github.com/msberends/AMR/tree/main/data-raw}{our GitHub repository}.
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}
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\examples{
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microorganisms.groups
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# these are all species in the Bacteroides fragilis group, as per WHONET:
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microorganisms.groups[microorganisms.groups$mo_group == "B_BCTRD_FRGL-C", ]
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}
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\seealso{
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\code{\link[=as.mo]{as.mo()}} \link{microorganisms}
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}
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\keyword{datasets}
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