R/yeast.R

In baldur: Bayesian Hierarchical Modeling for Label-Free Proteomics

#' Spiked-in data set of reversibly oxidized cysteines
#'
#' A dataset containing quantification of reversibly oxidized cysteines using
#' Progenesis. True positives cysteines spiked-in from yeast at two different
#' concentrations and true negatives from \emph{Chlamydomonas reinhardtii} with
#' the same concentration in all samples. To identify true positives one can use
#' `stringr::str_detect(yeast$identifier, 'YEAST')`. For details see
#' \insertCite{berg2019evaluation;textual}{baldur} and if you use this dataset
#' please cite the same paper.
#' @format A data frame with 2235 rows and 7 variables: \describe{
#'   \item{identifier}{id column for features, true positives contains YEAST and
#'   true negatives contains Cre}
#'    \item{ng50_1,ng50_2,ng50_3}{Biological replicates with
#'   true positives spiked-in from 50 ng yeast cells}
#'   \item{ng100_1,ng100_2,ng100_3}{Biological replicates with
#'   true positives spiked-in from 100 ng yeast cells}
#'   }
#' @source
#'   \url{https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2619-6}
#'
#' @references \insertAllCited{}
"yeast"