NRQeffs: Compute relative expression ratio

In NPhogat/RTqPCR: A work flow for analysis and normalization of pre-processing RT-qPCR data

Description

Perform normalization and compute relative expression ratio of target sample on the basis of efficiency based methods of Roche, Pfaffl and delta delta Cq from an object of class "RTqPCRBatch".

Usage

## S4 method for signature 'RTqPCRBatch'
NRQeffs(RTqPCRBatch, Target, Ref, ...)

Arguments

Target	Name of target sample gene under column Target name.
Ref	Name of reference gene under column Target name.
...	Other parameters to be passed to the downstream methods.
x	An object of class "RTqPCRBatch" produced as an result of function CombineTechReps.

Value

An object of class "data.frame" with new slots.

Author(s)

Navneet Phogat, Matthias Kohl, [e-mail]

Examples

## Read in the raw fluorescent data

## Read in the sample information data

## Merge the fluorescence and sample information data through merge function

## Compute the Cq values and amplification efficiencies

##  Implement the functions ReplaceNAs, ReplaceAboveCutOff, ReplaceValue and NonDetects as per requirement.

## Combine technical replicates - on the basis of efficiency

effsreps <- CombineTechReps(Cqeffs.LC480, cRepCq = FALSE)

##NRQeffs is an auxiliarry function to NRQeffsAll function. It can be implemented directly through the 
##NRQeffsAll function

NPhogat/RTqPCR documentation built on July 12, 2020, 12:56 p.m.