BuettnerESCData: Obtain the Buettner ESC data

Description Usage Arguments Details Value Author(s) References Examples

View source: R/BuettnerESCData.R

Description

Obtain the mouse embryonic stem cell single-cell RNA-seq data from Buettner et al. (2015).

Usage

1
BuettnerESCData(remove.htseq = TRUE)

Arguments

remove.htseq

Logical scalar indicating whether HT-seq alignment statistics should be removed.

Details

Rows corresponding to HT-seq's alignment statistics are removed by default. These can be retained by setting remove.htseq=FALSE.

Column metadata contains the experimentally determined cell cycle phase for each cell.

Counts for ERCC spike-ins are stored in the "ERCC" entry in the altExps.

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

Value

A SingleCellExperiment object with a single matrix of read counts.

Author(s)

Aaron Lun

References

Buettner F et al. (2015). Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells. Nat. Biotechnol. 33(2), 155-160.

Examples

1
sce <- BuettnerESCData()

LTLA/scRNAseq documentation built on Nov. 13, 2019, 12:43 p.m.