generateHTANMeta: Generate HTAN manifest file for droplet and cell count data

View source: R/sctkQCUtils.R

generateHTANMetaR Documentation

Generate HTAN manifest file for droplet and cell count data

Description

Generate HTAN manifest file for droplet and cell count data

Usage

generateHTANMeta(
  dropletSCE = NULL,
  cellSCE = NULL,
  samplename,
  htan_biospecimen_id,
  dir,
  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

htan_biospecimen_id

The HTAN biospecimen id of the sample in SingleCellExperiment object

dir

The output directory of the SCTK QC pipeline.

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.


compbiomed/singleCellTK documentation built on Oct. 27, 2024, 3:26 a.m.