UMI_duplication: UMI duplication statistics for a small sample scRNA-seq...

In LuyiTian/scPipe: Pipeline for single cell multi-omic data pre-processing

UMI duplication statistics for a small sample scRNA-seq dataset to demonstrate capabilities of scPipe

Description

This data.frame contains UMI duplication statistics, where the first column is the number of duplication, and the second column is the count of UMIs.

Format

a data.frame instance, one row per cell.

Value

NULL, but makes a data frame with UMI dulication statistics

Author(s)

Luyi Tian

Source

Christin Biben (WEHI). She FACS sorted cells from several immune cell types including B cells, granulocyte and some early progenitors.

Examples

data("sc_sample_data")
data("sc_sample_qc")
sce = SingleCellExperiment(assays = list(counts =as.matrix(sc_sample_data)))
organism(sce) = "mmusculus_gene_ensembl"
gene_id_type(sce) = "ensembl_gene_id"
QC_metrics(sce) = sc_sample_qc
demultiplex_info(sce) = cell_barcode_matching
UMI_dup_info(sce) = UMI_duplication

head(UMI_dup_info(sce))

LuyiTian/scPipe documentation built on Dec. 11, 2023, 8:21 p.m.