RichardTCellData: Obtain the Richard T cell data

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

Description

Obtain the mouse CD8+ T cell single-cell RNA-seq data from Richard et al. (2018).

Usage

RichardTCellData(location = TRUE)

Arguments

location

Logical scalar indicating whether genomic coordinates should be returned.

Details

Column metadata is provided in the same form as supplied in E-MTAB-6051. This contains information such as the stimulus, time after stimulation, age of the mice and sequencing batch.

Count data for ERCC spike-ins are stored in the "ERCC" entry of the altExps.

If location=TRUE, the coordinates of the Ensembl gene models are stored in the rowRanges of the output.

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

Value

A SingleCellExperiment object with a single matrix of read counts.

Author(s)

Aaron Lun

References

Richard AC et al. (2018). T cell cytolytic capacity is independent of initial stimulation strength. Nat. Immunol. 19(8), 849-858.

Examples

sce <- RichardTCellData()

drisso/scRNAseq documentation built on Feb. 16, 2021, 1:18 a.m.