NanoStringDiff (version 1.2.0)

housekeepingFactor: Acessor functions for the 'housekeepingFactor' slot in a NanoStringSet object.

Description

Housekeeping size factors can be used to adjust the variance caused by different sample input.

Usage

"housekeepingFactor"(object)
"housekeepingFactor"(object) <- value

Arguments

object

A NanoStringSet object.

value

A vector of housekeeping size factors.

Value

Details

Housekeeping gene normalization corrects for different in sample input between assays,since reference genes are suppose have same expression rate between samples.So the read counts from housekeeping genes, after subtracting background noise and adjusting by positive size factors, that are not expected to vary between samples. If there exist difference, which should be caused by sample input variation.

See Also

housekeepingControl

Examples

data(NanoStringData)
## obtain housekeeping factors
housekeepingFactor(NanoStringData)

## assign a vector
n=ncol(exprs(NanoStringData))
housekeepingFactor(NanoStringData)=rep(1,n)