Package: RQdeltaCT
Type: Package
Title: Relative Quantification of Gene Expression using Delta Ct
        Methods
Version: 1.3.3
Authors@R: person("Daniel", "Zalewski", role = c("aut", "cre"), email = "daniel.piotr.zalewski@gmail.com", comment = c(ORCID = "0000-0002-2254-2009"))
Description: 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.
URL: <https://github.com/Donadelnal/RQdeltaCT>
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.1
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)
Config/testthat/edition: 3
VignetteBuilder: knitr
Config/pak/sysreqs: cmake libfontconfig1-dev libfreetype6-dev
        libfribidi-dev make libharfbuzz-dev libicu-dev libjpeg-dev
        libpng-dev libtiff-dev libuv1-dev libwebp-dev libxml2-dev
        libssl-dev libx11-dev zlib1g-dev
Repository: https://donadelnal.r-universe.dev
Date/Publication: 2025-09-14 06:12:36 UTC
RemoteUrl: https://github.com/donadelnal/rqdeltact
RemoteRef: HEAD
RemoteSha: 8997f19de26390b171fa95f62b75948093b88ae2
NeedsCompilation: no
Packaged: 2026-10-09 09:22:22 UTC; root
Author: Daniel Zalewski [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-2254-2009>)
Maintainer: Daniel Zalewski <daniel.piotr.zalewski@gmail.com>