importAlevin {singleCellTK} | R Documentation

## Construct SCE object from Salmon-Alevin output

### Description

Construct SCE object from Salmon-Alevin output

### Usage

    importAlevin(alevinDir = NULL, sampleName = "sample", delayedArray = FALSE)

### Arguments

`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 `NULL`.
`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 `FALSE`.

### Value

A `SingleCellExperiment` object containing the count matrix, the feature annotations, and the cell annotation (which includes QC metrics stored in 'featureDump.txt').

[Package singleCellTK version 2.2.0 Index]