importAlevin {singleCellTK} | R Documentation |
Construct SCE object from Salmon-Alevin output
importAlevin(alevinDir = NULL, sampleName = "sample", delayedArray = FALSE)
alevinDir |
Character. The output directory of salmon-Alevin pipeline.
It should contain subfolder named 'alevin', which contains the count data
which is stored
in 'quants_mat.gz'. Default |
sampleName |
Character. A user-defined sample name for the sample to be imported. The 'sampleName' will be appended to the begining of cell barcodes. Default is 'sample'. |
delayedArray |
Boolean. Whether to read the expression matrix as
DelayedArray object or not. Default |
A SingleCellExperiment
object containing the count
matrix, the feature annotations, and the cell annotation
(which includes QC metrics stored in 'featureDump.txt').