R/EmbryoCelltypeColours.R

In MarioniLab/MouseGastrulationData: Single-Cell -omics Data across Mouse Gastrulation and Early Organogenesis

#' Celltype colours from Pijuan-Sala et al.
#'
#' A vector containing the colour hexcodes that were used
#' in Pijuan-Sala et al.
#'
#' @format A vector of hexcodes named according to the appropriate
#' celltype; celltypes match those in the metadata.
#'
#' @examples head(EmbryoCelltypeColours)
#'
#' @references
#' Pijuan-Sala B, Griffiths JA, Guibentif C et al. (2019).
#' A single-cell molecular map of mouse gastrulation and early organogenesis.
#' \emph{Nature} 566, 7745:490-495.
#'
#' @export
EmbryoCelltypeColours = c(
    "Epiblast" = "#635547",
    "Primitive Streak" = "#DABE99",
    "Caudal epiblast" = "#9E6762",
    "PGC" = "#FACB12",
    "Anterior Primitive Streak" = "#C19F70",
    "Notochord" = "#0F4A9C",
    "Def. endoderm" = "#F397C0",
    "Gut" = "#EF5A9D",
    "Nascent mesoderm" = "#C594BF",
    "Mixed mesoderm" = "#DFCDE4",
    "Intermediate mesoderm" = "#139992",
    "Caudal Mesoderm" = "#3F84AA",
    "Paraxial mesoderm" = "#8DB5CE",
    "Somitic mesoderm" = "#005579",
    "Pharyngeal mesoderm" = "#C9EBFB",
    "Cardiomyocytes" = "#B51D8D",
    "Allantois" = "#532C8A",
    "ExE mesoderm" = "#8870AD",
    "Mesenchyme" = "#CC7818",
    "Haematoendothelial progenitors" = "#FBBE92",
    "Endothelium" = "#FF891C",
    "Blood progenitors 1" = "#F9DECF",
    "Blood progenitors 2" = "#C9A997",
    "Erythroid1" = "#C72228",
    "Erythroid2" = "#F79083",
    "Erythroid3" = "#EF4E22",
    "NMP" = "#8EC792",
    "Rostral neurectoderm" = "#65A83E",
    "Caudal neurectoderm" = "#354E23",
    "Neural crest" = "#C3C388",
    "Forebrain/Midbrain/Hindbrain" = "#647A4F",
    "Spinal cord" = "#CDE088",
    "Surface ectoderm" = "#F7F79E",
    "Visceral endoderm" = "#F6BFCB",
    "ExE endoderm" = "#7F6874",
    "ExE ectoderm" = "#989898",
    "Parietal endoderm" = "#1A1A1A"
)