mirror of https://github.com/msberends/AMR.git
34 lines
1.7 KiB
R
34 lines
1.7 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.old}
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\alias{microorganisms.old}
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\title{Data set with old taxonomic data from ITIS}
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\format{A \code{\link{data.frame}} with 2,384 observations and 5 variables:
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\describe{
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\item{\code{tsn}}{Old Taxonomic Serial Number (TSN), as defined by ITIS}
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\item{\code{name}}{Old taxonomic name of the microorganism as found in ITIS, see Source}
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\item{\code{tsn_new}}{New Taxonomic Serial Number (TSN), as defined by ITIS}
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\item{\code{authors}}{Authors responsible for renaming as found in ITIS, see Source}
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\item{\code{year}}{Year in which the literature was published about the renaming as found in ITIS, see Source}
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}}
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\source{
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[3] Integrated Taxonomic Information System (ITIS) on-line database, \url{https://www.itis.gov}.
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}
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\usage{
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microorganisms.old
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}
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\description{
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A data set containing old (previously valid or accepted) taxonomic names according to ITIS. This data set is used internally by \code{\link{as.mo}}.
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}
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\section{ITIS}{
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\if{html}{\figure{itis_logo.jpg}{options: height=60px style=margin-bottom:5px} \cr}
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This \code{AMR} package contains the \strong{complete microbial taxonomic data} (with seven taxonomic ranks - from subkingdom to subspecies) from the publicly available Integrated Taxonomic Information System (ITIS, \url{https://www.itis.gov}). ITIS is a partnership of U.S., Canadian, and Mexican agencies and taxonomic specialists [3]. The complete taxonomic kingdoms Bacteria, Fungi and Protozoa are included in this package, as well as all previously accepted names known to ITIS.
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}
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\seealso{
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\code{\link{as.mo}} \code{\link{mo_property}} \code{\link{microorganisms}}
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}
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\keyword{datasets}
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