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

ddCt

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

Bioconductor version: 2.13

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 <jitao_david.zhang at roche.com>

Installation

To install this package, start R and enter:

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("ddCt")

 

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
PDF		Reference Manual
Text		NEWS

Details

biocViews	DifferentialExpression, GeneExpression, MicrotitrePlateAssay, Software, qPCR
Version	1.16.0
In Bioconductor since	BioC 2.5 (R-2.10)
License	LGPL-3
Depends	R (>= 2.3.0), Biobase(>= 1.10.0), RColorBrewer (>= 0.1-3), xtable, lattice, methods
Imports
Suggests	RUnit
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source	ddCt_1.16.0.tar.gz
Windows Binary	ddCt_1.16.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	ddCt_1.16.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats