SampleUMI: Sample UMI

In ibseq/scs-analysis: Tools for Single Cell Genomics

Description

Downsample each cell to a specified number of UMIs. Includes an option to upsample cells below specified UMI as well.

Usage

SampleUMI(data, max.umi = 1000, upsample = FALSE, verbose = FALSE)

Arguments

data	Matrix with the raw count data
max.umi	Number of UMIs to sample to
upsample	Upsamples all cells with fewer than max.umi
verbose	Display the progress bar

Value

Matrix with downsampled data

Examples

data("pbmc_small")
counts = as.matrix(x = GetAssayData(object = pbmc_small, assay = "RNA", slot = "counts"))
downsampled = SampleUMI(data = counts)
head(x = downsampled)

ibseq/scs-analysis documentation built on Feb. 27, 2021, 12:35 a.m.