cpm: Accessors for the 'cpm' (counts per million) element of an...

In dynverse/scaterlegacy: Single-cell analysis toolkit for gene expression data in R

Description

The cpm element of the arrayData slot in an SCESet object holds a matrix containing counts-per-million values. It has the same dimensions as the 'exprs' and 'counts' elements, which hold the transformed expression data and count data, respectively.

Usage

cpm(object)

cpm(object) <- value

## S4 method for signature 'SCESet'
cpm(object)

## S4 replacement method for signature 'SCESet,matrix'
cpm(object)<-value

## S4 method for signature 'SCESet'
cpm(object)

## S4 replacement method for signature 'SCESet,matrix'
cpm(object) <- value

Arguments

object	a SCESet object.
value	a matrix of class "numeric"

Value

a matrix of counts-per-million values

Author(s)

Davis McCarthy

Examples

data("sc_example_counts")
data("sc_example_cell_info")
example_sceset <- newSCESet(countData=sc_example_counts)
cpm(example_sceset)[1:10, 1:6]

dynverse/scaterlegacy documentation built on Feb. 17, 2020, 5:07 a.m.