normalizeCounts: Normalizes counts to CPM

In JEFworks/MUDAN: Multi-sample Unified Discriminant ANalysis

Description

Normalizes raw counts to log10 counts per million with pseudocount

Usage

normalizeCounts(counts, depthScale = 1e+06, verbose = TRUE)

Arguments

counts	Read count matrix. The rows correspond to genes, columns correspond to individual cells
depthScale	Depth scaling. Using a million for CPM (default: 1e6)
verbose	Verbosity (default: TRUE)

Value

a normalized matrix

Examples

{
data(pbmcA)
cd <- pbmcA[, 1:500]
mat <- normalizeCounts(cd)
}

JEFworks/MUDAN documentation built on June 19, 2021, 6:46 a.m.