R/ps_plaque_16S.R

In mcalgaro93/benchdamic: Benchmark of differential abundance methods on microbiome data

#' @title (Data) 60 Gingival Plaque samples of 16S rRNA (HMP 2012)
#'
#' @description A demonstrative purpose dataset containing microbial abundances
#' for a total of 88 OTUs. The 60 Gingival Plaque paired samples belong to the
#' Human Microbiome Project. This particular subset contains 30 Supragingival
#' and 30 Subgingival Plaque samples from the \code{SEX = "Male"},
#' \code{RUN_CENTER = "WUCG"}, and \code{VISITNO = "1"} samples. It is possible
#' to obtain the same dataset after basic filters (remove taxa with zero counts)
#' and collapsing the counts to the genus level; \code{HMP16SData} Bioconductor
#' package was used to download the data.
#'
#' @docType data
#' @aliases ps_plaque_16S
#'
#' @usage data(ps_plaque_16S)
#'
#' @format An object of class \code{phyloseq}
"ps_plaque_16S"