posCtrlNorm: Positive control normalization

In NanoStringQCPro: Quality metrics and data processing methods for NanoString mRNA gene expression data

Description

Applies positive control normalization to the data in an RccSet object.

Usage

## S4 method for signature 'RccSet'
posCtrlNorm(rccSet, summaryFunction = "sum",
  quietly = FALSE)

Arguments

rccSet	An RccSet object.
summaryFunction	Function to be used for the normalization (e.g. "mean", "median", or "sum"). User-defined functions similar to these can be specified here as well.
quietly	Logical. If TRUE, messages and warnings will not be shown.

Value

A copy of the input RccSet that has count data adjusted by positive control counts. The positive control scaling factor is recorded in PosFactor in the output's phenoData (if this column already exists in the input, it will be overwritten in the output copy).

Author(s)

Dorothee Nickles

Examples

data(example_rccSet)
pcnorm_example_rccSet <- posCtrlNorm(example_rccSet)

NanoStringQCPro documentation built on Nov. 8, 2020, 8:11 p.m.