DeltaCq: Compute delta Cq value and standard deviation of delta Cq

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

Description

Compute delta Cq and standard deviation of delta Cq of object of "RTqPCRBatch".

Usage

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

Arguments

RTqPCRBatch	An object of class "RTqPCRBatch" produced as an output of CombineTechReps function.
Ref	Name of reference gene under column Target name.
...	other parameters to be passed to the downstream methods.

Value

An object of "RTqPCRBatch" 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 (based on Cq values) : see also CombineTechReps function and vignettes

Cqreps <- CombineTechReps(Cqeffs.LC480)
Cqreps   ## to visualise the overview of the resulting data

## To compute the delta Cq value
deltaCq <- DeltaCq(Cqreps, Ref = "hk")

## For more details see the vignettes

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