% Generated by roxygen2: do not edit by hand % Please edit documentation in R/italicise_taxonomy.R \name{italicise_taxonomy} \alias{italicise_taxonomy} \alias{italicize_taxonomy} \title{Italicise Taxonomic Families, Genera, Species, Subspecies} \usage{ italicise_taxonomy(string, type = c("markdown", "ansi", "html")) italicize_taxonomy(string, type = c("markdown", "ansi", "html")) } \arguments{ \item{string}{a \link{character} (vector)} \item{type}{type of conversion of the taxonomic names, either "markdown", "html" or "ansi", see \emph{Details}} } \description{ According to the binomial nomenclature, the lowest four taxonomic levels (family, genus, species, subspecies) should be printed in italics. This function finds taxonomic names within strings and makes them italic. } \details{ This function finds the taxonomic names and makes them italic based on the \link{microorganisms} data set. The taxonomic names can be italicised using markdown (the default) by adding \code{*} before and after the taxonomic names, or \verb{} and \verb{} when using html. When using 'ansi', ANSI colours will be added using \verb{\\033[3m} before and \verb{\\033[23m} after the taxonomic names. If multiple ANSI colours are not available, no conversion will occur. This function also supports abbreviation of the genus if it is followed by a species, such as "E. coli" and "K. pneumoniae ozaenae". } \examples{ italicise_taxonomy("An overview of Staphylococcus aureus isolates") italicise_taxonomy("An overview of S. aureus isolates") cat(italicise_taxonomy("An overview of S. aureus isolates", type = "ansi")) }