The hardware and bandwidth for this mirror is donated by dogado GmbH, the Webhosting and Full Service-Cloud Provider. Check out our Wordpress Tutorial.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]dogado.de.

RQdeltaCT: Relative Quantification of Gene Expression using Delta Ct Methods

The commonly used methods for relative quantification of gene expression levels obtained in real-time PCR (Polymerase Chain Reaction) experiments are the delta Ct methods, encompassing 2^-dCt and 2^-ddCt methods, originally proposed by Kenneth J. Livak and Thomas D. Schmittgen (2001) <doi:10.1006/meth.2001.1262>. The main idea is to normalise gene expression values using endogenous control gene, present gene expression levels in linear form by using the 2^-(value)^ transformation, and calculate differences in gene expression levels between groups of samples (or technical replicates of a single sample). The 'RQdeltaCT' package offers functions that cover both methods for comparison of either independent groups of samples or groups with paired samples, together with importing expression datasets, performing multi-step quality control of data, enabling numerous data visualisations, enrichment of the standard workflow with additional useful analyses (correlation analysis, Receiver Operating Characteristic analysis, logistic regression), and conveniently export obtained results in table and image formats. The package has been designed to be friendly to non-experts in R programming.

Version: 1.3.0
Depends: R (≥ 2.10)
Imports: tidyverse, dplyr, ggplot2, magrittr, tidyr, tidyselect, coin, ctrlGene, ggsignif, Hmisc, corrplot, ggpmisc, pROC, oddsratio, stats, graphics, grDevices, utils, pheatmap, GGally
Suggests: knitr, rmarkdown, testthat (≥ 3.0.0)
Published: 2024-04-17
DOI: 10.32614/CRAN.package.RQdeltaCT
Author: Daniel Zalewski ORCID iD [aut, cre]
Maintainer: Daniel Zalewski <daniel.piotr.zalewski at gmail.com>
License: GPL-3
URL: <https://github.com/Donadelnal/RQdeltaCT>
NeedsCompilation: no
Materials: README
CRAN checks: RQdeltaCT results

Documentation:

Reference manual: RQdeltaCT.pdf
Vignettes: RQdeltaCT - Relative Quantification of Gene Expression using Delta Ct Methods

Downloads:

Package source: RQdeltaCT_1.3.0.tar.gz
Windows binaries: r-devel: RQdeltaCT_1.3.0.zip, r-release: RQdeltaCT_1.3.0.zip, r-oldrel: RQdeltaCT_1.3.0.zip
macOS binaries: r-release (arm64): RQdeltaCT_1.3.0.tgz, r-oldrel (arm64): RQdeltaCT_1.3.0.tgz, r-release (x86_64): RQdeltaCT_1.3.0.tgz, r-oldrel (x86_64): RQdeltaCT_1.3.0.tgz
Old sources: RQdeltaCT archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=RQdeltaCT to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.