ddCtAbsolute

data frame. It must contain columns with the
    following names:'Ct','Sample','Detector','Platename'. The column
    'Ct' must contain numeric values. 

raw.table

addData

character of length 1. `mean` or `median`- which method should be used for the
    aggregation of the repicates 

type

 if specified it must be an object of class
    <code>phenoData</code> with a column named 'Sample'. 

sampleInformation

boolean - if there is only one replication should the error be
    treated as zero ? (only if 'type' is mean) 

toZero

 character of length 1. The name of the file the
    warnings should be stored in. 

filename


  absolute quantification for Taqman data


The Delta-Delta-Ct (ddCt) Algorithm is an approximation method to determine relative gene expression with quantitative real-time PCR (qRT-PCR) experiments. Compared to other approaches, it requires no standard curve for each primer-target pair, therefore reducing the working load and yet returning accurate enough results as long as the assumptions of the amplification efficiency hold. The ddCt package implements a pipeline to collect, analyse and visualize qRT-PCR results, for example those from TaqMan SDM software, mainly using the ddCt method. The pipeline can be either invoked by a script in command-line or through the API consisting of S4-Classes, methods and functions.

Jitao David Zhang

ddCt

The ddCt Algorithm for the Analysis of Quantitative Real-Time PCR (qRT-PCR)

ddCtAbsolute function

data frame. It must contain columns with the
    following names:'Ct','Sample','Detector','Platename'. The column
    'Ct' must contain numeric values.

character of length 1. `mean` or `median`- which method should be used for the
    aggregation of the repicates

if specified it must be an object of class
    <code>phenoData</code> with a column named 'Sample'.

boolean - if there is only one replication should the error be
    treated as zero ? (only if 'type' is mean)

character of length 1. The name of the file the
    warnings should be stored in.

ddCtAbsolute: absolute quantification for Taqman data

Description

Usage

Arguments

Value

References