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dr. M.S. (Matthijs) Berends
2019-06-02 19:50:22 +02:00
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man/microorganisms.Rd
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@ -4,7 +4,18 @@
\name{microorganisms}
\alias{microorganisms}
\title{Data set with ~65,000 microorganisms}
\format{An object of class \code{data.frame} with 67903 rows and 16 columns.}
\format{A \code{\link{data.frame}} with 67,903 observations and 16 variables:
\describe{
\item{\code{mo}}{ID of microorganism as used by this package}
\item{\code{col_id}}{Catalogue of Life ID}
\item{\code{fullname}}{Full name, like \code{"Escherichia coli"}}
\item{\code{kingdom}, \code{phylum}, \code{class}, \code{order}, \code{family}, \code{genus}, \code{species}, \code{subspecies}}{Taxonomic rank of the microorganism}
\item{\code{rank}}{Text of the taxonomic rank of the microorganism, like \code{"species"} or \code{"genus"}}
\item{\code{ref}}{Author(s) and year of concerning scientific publication}
\item{\code{species_id}}{ID of the species as used by the Catalogue of Life}
\item{\code{source}}{Either \code{"CoL"}, \code{"DSMZ"} (see source) or "manually added"}
\item{\code{prevalence}}{Prevalence of the microorganism, see \code{?as.mo}}
}}
\source{
Catalogue of Life: Annual Checklist (public online taxonomic database), \url{www.catalogueoflife.org} (check included annual version with \code{\link{catalogue_of_life_version}()}).