View source: R/HCATonsilData.R
HCATonsilData | R Documentation |
The data was downloaded from Zenodo https://zenodo.org/record/8373756
HCATonsilData(
assayType = c("RNA", "ATAC", "CITE", "Spatial"),
cellType = "All",
version = "2.0",
processedCounts = TRUE
)
assayType |
One of 'RNA', 'ATAC', 'Multiome', 'CITE' or 'Spatial'. |
cellType |
A character vector of length 1 with the desired cell type.
A list of available cell types can be obtained using
|
version |
Version of the tonsil atlas data to retrieve: "1.0" (preprint) or "2.0" (publication, default) |
processedCounts |
Logical scalar. If |
A SingleCellExperiment object for the cellType requested. For scATAC-seq, Multiome and CITE we provide the instructions for downloading the Seurat objects in Zenodo (see vignette)
Ramon Massoni-Badosa
# retrieve the epithelial scRNA-seq dataset
sce_epithelial <- HCATonsilData(
assayType = "RNA",
cellType = "epithelial"
)
sce_epithelial
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