positiveControl: Acessor functions for the 'positiveControl' slot in a...

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

Description

nCounter Analyzer has positive spike-in RNA hybridization controls for each sample which can be used to estimate the overall efficiency of hybridization and recovery for each sample.

Usage

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## S4 method for signature 'NanoStringSet'
positiveControl(object)
## S4 replacement method for signature 'NanoStringSet,matrix'
positiveControl(object) <- value

Arguments

object

A NanoStringSet object.

value

A matrix with six positive control genes.

Details

Positive control genes are provided by NanoString nCounter technology. For each sample, nCounter provide six positive controls corresponding to six different concentrations in the 30 ul hybridzation: 128fM, 32fM, 8fM, 2fM, 0.5fM, and 0.125fM. Six positive control genes must be order by concentrations from high to low.

Value

A matrix contain positive control genes

Author(s)

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

See Also

positiveFactor

Examples

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data(NanoStringData)
## obtain positive control genes
positiveControl(NanoStringData)

## assign a matrix
n=ncol(exprs(NanoStringData))
x=matrix(c(128,32,8,2,0.5,0.125)*80,ncol=1)
positive=matrix(rpois(6*n,x),ncol=n)
positiveControl(NanoStringData)=positive

Shedimus/NanoStringDiff documentation built on Dec. 5, 2019, 1:56 a.m.