R/tax_tab.R

In XinranMiao/Test: What the Package Does (One Line, Title Case)

#' Return Lad coefficients
#'
#' The function returns the named coefcients vector
#' @param seqtab sequence count table generated by seq_tab()
#' @param train_fasta tbd
#' @param species_fasta tbd
#' @param ... further arguments passed to or from other methods
#' @details 
#' @export
#' @examples
tax_tab = function(seqtab, 
                   train_fasta,# "assignTaxonomy/rdp_train_set_14.fa.gz",
                   species_fasta,# "assignTaxonomy/rdp_species_assignment_14.fa.gz"
                   ...
){
  taxtab <- dada2::assignTaxonomy(seqtab, refFasta = train_fasta)
  taxtab <- dada2::addSpecies(taxtab, refFasta = species_fasta)
  return(taxtab)
}