depmap: Cancer Dependency Map Data Package

#' achilles_22Q2
#'
#' The `achilles` dataset contains the metadata for DepMap’s cancer models/cell
#' lines, specific to Project Achilles’ 22Q2 CRISPR screens. This dataset can be
#' loaded into the R environment with the `depmap_achilles` function.
#'
#' @format A data frame with 1036 rows and 6 variables:
#' \describe{
#'     \item{depmap_id}{cancer cancer cell line foreign key (i.e. "ACH-00001")}
#'     \item{cell_line}{CCLE name of cancer cell line (i.e. "184A1_BREAST")}
#'     \item{achilles_n_replicates}{Number of replicates used in Achilles CRISPR
#'      screen passing QC}
#'     \item{cell_line_NNMD}{Difference in the means of positive and negative
#'      controls normalized by the standard deviation of the negative control
#'      distribution}
#'     \item{culture_medium}{Medium used to grow cell line}
#'     \item{cas9_activity}{Percentage of cells remaining GFP negative on days
#'      12-14 of cas9 activity assay as measured by FACs}
#' }
#'
#' @details This data represents the `Achilles_metadata.csv` file taken from the
#' 22Q2 [Broad Institute](https://depmap.org/portal/download/) release.
#'
#' @section Change log:
#'
#' - 22Q1: Initial dataset
#'
#' - 22Q2: "culture_type" column was removed
#'
#' @docType data
#'
#' @import dplyr
#'
#' @keywords datasets
#'
#' @examples
#' \dontrun{
#' depmap_achilles()
#' }
#'
#' @references Tsherniak, A., Vazquez, F., Montgomery, P. G., Weir, B. A.,
#' Kryukov, G., Cowley, G. S., ... & Meyers, R. M. (2017). Defining a cancer
#' dependency map. Cell, 170(3), 564-576.
#'
#' James M. McFarland, Zandra V. Ho, Guillaume Kugener, Joshua M. Dempster,
#' Phillip G. Montgomery, Jordan G. Bryan, John M. Krill-Burger, Thomas M.
#' Green, Francisca Vazquez, Jesse S. Boehm, Todd R. Golub, William C. Hahn,
#' David E. Root, Aviad Tsherniak. (2018). Improved estimation of cancer
#' dependencies from large-scale RNAi screens using model-based normalization
#' and data integration. Nature Communications 9, 1.
#'
#' @source DepMap, Broad Institute: https://depmap.org/portal/download/
#'
#' @rdname achilles
#'
#' @aliases depmap_achilles achilles_22Q1 achilles_22Q2
achilles <- NULL