HermannSpermatogenesisData: Obtain the Hermann spermatogenesis data

In LTLA/scRNAseq: Collection of Public Single-Cell RNA-Seq Datasets

Obtain the Hermann spermatogenesis data

Description

Obtain the mouse spermatogenesis single-cell RNA-seq data from Hermann et al. (2018).

Usage

HermannSpermatogenesisData(strip = FALSE, location = TRUE, legacy = FALSE)

Arguments

strip	Logical scalar indicating whether to strip the .X notation from the row names.
location	Logical scalar indicating whether genomic coordinates should be returned. Only used if strip=TRUE.
legacy	Logical scalar indicating whether to pull data from ExperimentHub. By default, we use data from the gypsum backend.

Details

Column metadata contains cell types provided by the data generators at https://data.mendeley.com/datasets/kxd5f8vpt4/1#file-fe79c10b-c42e-472e-9c7e-9a9873d9b3d8.

All data are downloaded from ExperimentHub and cached for local re-use. Specific resources can be retrieved by searching for scRNAseq/hermann-spermatogenesis.

Value

A SingleCellExperiment object with two matrices, containing spliced and unspliced counts, respectively.

Author(s)

Charlotte Soneson

References

Hermann B.P. et al. (2018). The Mammalian Spermatogenesis Single-Cell Transcriptome, from Spermatogonial Stem Cells to Spermatids. Cell Rep. 25(6), 1650-1667.e8.

Examples

sce <- HermannSpermatogenesisData()

LTLA/scRNAseq documentation built on April 24, 2024, 5:58 p.m.