norm_fpkm: Accessors for the 'norm_fpkm' (normalised fragments per...

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

Description

The norm_fpkm element of the arrayData slot in an SCESet object holds a matrix containing normalised fragments per kilobase of exon per million reads mapped (FPKM) values. It has the same dimensions as the 'exprs' and 'counts' elements, which hold the transformed expression data and count data, respectively.

Usage

norm_fpkm(object)

norm_fpkm(object) <- value

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

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

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

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

Arguments

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

Value

a matrix of normalised FPKM data

Author(s)

Davis McCarthy

Examples

data("sc_example_counts")
data("sc_example_cell_info")
example_sceset <- newSCESet(countData = sc_example_counts)
norm_fpkm(example_sceset)

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