mirror of
https://github.com/msberends/AMR.git
synced 2024-12-25 20:06:12 +01:00
35 lines
1.8 KiB
R
35 lines
1.8 KiB
R
% Generated by roxygen2: do not edit by hand
|
|
% Please edit documentation in R/data.R
|
|
\docType{data}
|
|
\name{microorganisms.codes}
|
|
\alias{microorganisms.codes}
|
|
\title{Translation table for microorganism codes}
|
|
\format{A \code{\link{data.frame}} with 4,965 observations and 2 variables:
|
|
\describe{
|
|
\item{\code{certe}}{Commonly used code of a microorganism}
|
|
\item{\code{mo}}{ID of the microorganism in the \code{\link{microorganisms}} data set}
|
|
}}
|
|
\usage{
|
|
microorganisms.codes
|
|
}
|
|
\description{
|
|
A data set containing commonly used codes for microorganisms, from laboratory systems and WHONET. Define your own with \code{\link{set_mo_source}}.
|
|
}
|
|
\section{Catalogue of Life}{
|
|
|
|
\if{html}{\figure{logo_col.png}{options: height=40px style=margin-bottom:5px} \cr}
|
|
This package contains the complete taxonomic tree of almost all microorganisms (~70,000 species) from the authoritative and comprehensive Catalogue of Life (\url{http://www.catalogueoflife.org}). The Catalogue of Life is the most comprehensive and authoritative global index of species currently available.
|
|
|
|
\link[=catalogue_of_life]{Click here} for more information about the included taxa. Check which version of the Catalogue of Life was included in this package with \code{\link{catalogue_of_life_version}()}.
|
|
}
|
|
|
|
\section{Read more on our website!}{
|
|
|
|
On our website \url{https://msberends.gitlab.io/AMR} you can find \href{https://msberends.gitlab.io/AMR/articles/AMR.html}{a tutorial} about how to conduct AMR analysis, the \href{https://msberends.gitlab.io/AMR/reference}{complete documentation of all functions} (which reads a lot easier than here in R) and \href{https://msberends.gitlab.io/AMR/articles/WHONET.html}{an example analysis using WHONET data}.
|
|
}
|
|
|
|
\seealso{
|
|
\code{\link{as.mo}} \code{\link{microorganisms}}
|
|
}
|
|
\keyword{datasets}
|