ddCt

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

Bioconductor version: Release (2.7)

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.

Author: Jitao David Zhang, Rudolf Biczok and Markus Ruschhaupt

Maintainer: Jitao David Zhang

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("ddCt")    

Documentation

PDF	R Script	Analyse RT-PCR data with the end-to-end script in ddCt package
PDF	R Script	How to apply the ddCt method
PDF	R Script	Introduction to the ddCt method for qRT-PCR data analysis: background, algorithm and example

Reference Manual

Details

biocViews	GeneExpression, DifferentialExpression, RT-PCR
Depends	R, Biobase, RColorBrewer, xtable, lattice, methods
Imports
Suggests
System Requirements
License	LGPL-3
URL
Depends On Me
Imports Me
Suggests Me
Version	1.4.0

Package Downloads

Package Source	ddCt_1.4.0.tar.gz
Windows Binary	ddCt_1.4.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	ddCt_1.4.0.tgz
Package Downloads Report	Download Stats