housekeepingFactor: Acessor functions for the 'housekeepingFactor' slot in a...
In NanoStringDiff: Differential Expression Analysis of NanoString nCounter Data

Description Usage Arguments Details Value Author(s) See Also Examples

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

## S4 method for signature 'NanoStringSet'
housekeepingFactor(object)
## S4 replacement method for signature 'NanoStringSet,numeric'
housekeepingFactor(object) <- value

`object`	A NanoStringSet object.
`value`	A vector of housekeeping size factors.

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.

A vector contain housekeeping factors

Hong Wang <hong.wang@uky.edu> chi wang <chi.wang@uky.edu>

housekeepingControl

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

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