Bioconductor - ddCt

Bioconductor - ddCt
Bioconductor 3.22
Software Packages
ddCt
ddCt
This is the
released
version of ddCt; for the devel version, see
ddCt
The ddCt Algorithm for the Analysis of Quantitative Real-Time PCR (qRT-PCR)
DOI:
10.18129/B9.bioc.ddCt
Bioconductor version:
Release (3.22)
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
Citation (from within R, enter
citation("ddCt")
):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")

BiocManager::install("ddCt")
For older versions of R, please refer to the appropriate
Bioconductor release
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ddCt")
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
R Script
Reference Manual
PDF
Need some help? Ask on the Bioconductor Support site!
Details
biocViews
DifferentialExpression
GeneExpression
MicrotitrePlateAssay
Software
qPCR
Version
1.66.0
In Bioconductor since
BioC 2.5 (R-2.10) (16.5 years)
License
LGPL-3
Depends
R (>= 2.3.0), methods
Imports
Biobase
(>= 1.10.0),
RColorBrewer
(>= 0.1-3),
xtable
lattice
BiocGenerics
System Requirements
URL
See More
Suggests
testthat
(>= 3.0.0),
RUnit
Linking To
Enhances
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Imports Me
Suggests Me
Links To Me
Build Report
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Follow
Installation
instructions to use this package in your R session.
Source Package
ddCt_1.66.0.tar.gz
Windows Binary (x86_64)
ddCt_1.66.0.zip
macOS Binary (x86_64)
ddCt_1.66.0.tgz
macOS Binary (arm64)
ddCt_1.66.0.tgz
Source Repository
git clone https://git.bioconductor.org/packages/ddCt
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/ddCt
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