exportSCEtoFlatFile: Export a SingleCellExperiment object to flat text files

In compbiomed/singleCellTK: Comprehensive and Interactive Analysis of Single Cell RNA-Seq Data

Export a SingleCellExperiment object to flat text files

Description

Writes all assays, colData, rowData, reducedDims, and altExps objects in a SingleCellExperiment to text files. The items in the 'metadata' slot remain stored in list and are saved in an RDS file.

Usage

exportSCEtoFlatFile(
  sce,
  outputDir = "./",
  overwrite = TRUE,
  gzipped = TRUE,
  prefix = "SCE"
)

Arguments

sce	SingleCellExperiment object to be exported.
outputDir	Name of the directory to store the exported file(s).
overwrite	Boolean. Whether to overwrite the output files. Default TRUE.
gzipped	Boolean. TRUE if the output files are to be gzip compressed. FALSE otherwise. Default TRUE.
prefix	Prefix of file names.

Value

Generates text files containing data from inSCE.

Examples

data(sce_chcl, package = "scds")
## Not run: 
exportSCEtoFlatFile(sce_chcl, "sce_chcl")

## End(Not run)

compbiomed/singleCellTK documentation built on June 11, 2025, 9:45 a.m.