Calculate fraction of reads in peaks per cell — FRiP • Signac

Calculate fraction of reads in peaks per cell

Usage

FRiP(object, assay, total.fragments, col.name = "FRiP", verbose = TRUE)

Arguments

object: A Seurat object
assay: Name of the assay containing a peak x cell matrix
total.fragments: Name of a metadata column containing the total number of sequenced fragments for each cell. This can be computed using the CountFragments() function.
col.name: Name of column in metadata to store the FRiP information.
verbose: Display messages

Value

Returns a SeuratObject::Seurat() object

Examples

FRiP(object = atac_small, assay = "peaks", total.fragments = "fragments")
#> Calculating fraction of reads in peaks per cell
#> An object of class Seurat 
#> 150 features across 100 samples within 2 assays 
#> Active assay: peaks (100 features, 0 variable features)
#>  2 layers present: counts, data
#>  1 other assay present: RNA
#>  2 dimensional reductions calculated: lsi, umap