Retrieves published example datasets stored in SingleCellExperiment using the scRNAseq and TENxPBMCData packages. See 'Details' for a list of available datasets.
importExampleData(
dataset,
class = c("Matrix", "matrix"),
delayedArray = FALSE,
rowNamesDedup = TRUE
)
Character. Name of the dataset to retrieve.
Character. The class of the expression matrix stored in the SCE
object. Can be one of "Matrix"
or "matrix"
. "Matrix"
will store the data as a sparse matrix from package Matrix while
"matrix"
will store the data in a standard matrix. Default
"Matrix"
.
Boolean. Whether to read the expression matrix as
DelayedArray object or not. Default FALSE
.
Boolean. Whether to deduplicate rownames. Default
TRUE
.
The specified SingleCellExperiment object.
See the list below for the available datasets and their descriptions.
Retrieved with
ReprocessedFluidigmData
. Returns a dataset of 65
human neural cells from Pollen et al. (2014), each sequenced at high and low
coverage (SRA accession SRP041736).
Retrieved with
ReprocessedAllenData
. Returns a dataset of 379 mouse
brain cells from Tasic et al. (2016).
Retrieved with
NestorowaHSCData
. Returns a dataset of 1920 mouse
haematopoietic stem cells from Nestorowa et al. 2015
Retrieved with TENxPBMCData
.
2,700 peripheral blood mononuclear cells (PBMCs) from 10X Genomics.
Retrieved with TENxPBMCData
.
4,340 peripheral blood mononuclear cells (PBMCs) from 10X Genomics.
Retrieved with TENxPBMCData
.
5,419 peripheral blood mononuclear cells (PBMCs) from 10X Genomics.
Retrieved with TENxPBMCData
.
8,381 peripheral blood mononuclear cells (PBMCs) from 10X Genomics.
Retrieved with TENxPBMCData
.
33,148 peripheral blood mononuclear cells (PBMCs) from 10X Genomics.
Retrieved with TENxPBMCData
.
68,579 peripheral blood mononuclear cells (PBMCs) from 10X Genomics.
sce <- importExampleData("pbmc3k")
#> snapshotDate(): 2022-10-31
#> see ?TENxPBMCData and browseVignettes('TENxPBMCData') for documentation
#> loading from cache