generateMeta: Generate manifest file for droplet and cell count data

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

Description

Generate manifest file for droplet and cell count data

Usage

generateMeta(
  dropletSCE = NULL,
  cellSCE = NULL,
  samplename,
  dir,
  HTAN = TRUE,
  dataType = c("Droplet", "Cell", "Both")
)

Arguments

dropletSCE	A SingleCellExperiment object containing droplet count matrix data
cellSCE	A SingleCellExperiment object containing cell count matrix data
samplename	The sample name of the SingleCellExperiment objects
dir	The output directory of the SCTK QC pipeline.
HTAN	Whether generate manifest file with the format required by HTAN. Default is TRUE.
dataType	Type of the input data. It can be one of "Droplet", "Cell" or "Both".

Value

A SingleCellExperiment object which combines all objects in sceList. The colData is merged.

Examples

data(scExample, package = "singleCellTK")
generateMeta(sce, dir = ".", samplename = "Sample",
 HTAN = TRUE)

singleCellTK documentation built on Nov. 8, 2020, 5:21 p.m.