R/data.R

In m-jahn/WeightedTreemaps: Generate and Plot Voronoi or Sunburst Treemaps from Hierarchical Data

# Before roxygenise() save data frame with:
# save(df, file = "Jahn_CellReports_2018.RData")
#
#' Data from the publication of Jahn et al., CellReports, 2018
#'
#' The dataset contains protein abundances of the Synechocystis sp.
#' PCC6803 proteome. Protein abundance was determined using shotgun
#' mass spectrometry. The data set also contains pathway information according to
#' the cyanobase hierarchical annotation:
#'
#' \itemize{
#'   \item protein - protein ID
#'   \item condition - combination from light and CO2
#'   \item light - light intensity in umol photons / m2 * s
#'   \item co2_concentration - CO2 concentration in % vol
#'   \item mean_intensity - mean MS1 ion intensity
#'   \item mean_mass_fraction_norm - normalized mean mass fraction of protein
#'   \item sd_intensity - standard deviation from mean
#'   \item Process - functional annotation 1st level
#'   \item Pathway - functional annotation 2nd level
#'   \item Protein - functional annotation 3rd level
#'   \item Process.abbr - abbreviated Process
#'   \item Pathway.abbr - abbreviated Pathway
#'   \item Gene.names - trivial names of genes, if available
#' }
#'
#' @docType data
#' @usage data(Jahn_CellReports_2018)
#' @format A data frame with 19790 rows and 12 variables
#' @source \url{https://pubmed.ncbi.nlm.nih.gov/30304686/}
"Jahn_CellReports_2018"

#' Coordinates to draw a rounded rectangle as parent cell for treemaps
#'
#' Set of coordinates for a rounded rectangle as parent cell for treemaps
#'
#' \itemize{
#'   \item X - coordinate
#'   \item Y - coordinate
#' }
#'
#' @docType data
#' @usage data(rounded_rect)
#' @format A data frame with 50 rows and 2 variables
"rounded_rect"