Convert CPM to logCPM, i.e. using log2(CPM/10 + 1).

logcpm(m, bulk = F)

Arguments

m

matrix of CPM values (gene rows; cell columns)

bulk

if bulk then instead uses log2(CPM + 1). i.e. no scaling. Default: F

Value

logCPM matrix

Details

CPM/10 is used for single cells since 100,000 is a more reasonable estimate than 1,000,000 for the number of RNA transcripts in a cell. 1,000,000 is reasonable estimate for bulk samples that contain multiple cells.