View source: R/TabulaMurisSenisFACS.R
TabulaMurisSenisFACS | R Documentation |
Access the FACS (Smart-Seq2) RNA-seq data from the Tabula Muris Senis consortium.
TabulaMurisSenisFACS(
tissues = "All",
processedCounts = FALSE,
reducedDims = TRUE,
infoOnly = FALSE
)
tissues |
A character vector with the tissues to retrieve objects for.
A list of available tissues can be obtained using
|
processedCounts |
Logical scalar. If |
reducedDims |
Logical scalar. If |
infoOnly |
Logical scalar. If |
The data set was downloaded from figshare (https://figshare.com/articles/dataset/Processed_files_to_use_with_scanpy_/8273102?file=23937842 for the full data set, https://figshare.com/articles/dataset/Tabula_Muris_Senis_Data_Objects/12654728 for the individual tissue ones).
If infoOnly
is FALSE
, returns a named list of
SingleCellExperiment objects (one per tissue requested
via tissues
). Otherwise, each element in the list is 'NULL'.
Charlotte Soneson
Schaum et al (2019): The murine transcriptome reveals global aging nodes with organ-specific phase and amplitude. bioRxiv doi:10.1101/662254.
The Tabula Muris Consortium (2020): A single-cell transcriptomic atlas characterizes ageing tissues in the mouse. Nature 583:590–595.
if (interactive()) {
sce <- TabulaMurisSenisFACS(tissues = "All")
}
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