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rtpcr (version 2.1.4)

qPCR Data Analysis

Description

Tools for qPCR data analysis using Delta Ct and Delta Delta Ct methods, including t-test, Wilcoxon-test, ANOVA models, and publication-ready visualizations. The package supports multiple target, and multiple reference genes, and uses a calculation framework adopted from Ganger et al. (2017) and Taylor et al. (2019) , covering both the Livak and Pfaffl methods.

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Install

install.packages('rtpcr')

Monthly Downloads

520

Version

2.1.4

License

GPL-3

Issues

1

Pull Requests

0

Stars

1

Forks

1

Maintainer

Ghader Mirzaghaderi

Last Published

February 12th, 2026

Functions in rtpcr (2.1.4)

globalVariables

Internal global variables
multiplot

Combine multiple ggplot objects into a single layout
long_to_wide

Converts a 4-column qPCR long data format to wide format
meanTech

Computing the mean of technical replicates
data_repeated_measure_2

Repeated measure sample data
data_ttest18genes

Sample data in (two-group design with multiple target genes)
data_withTechRep

Sample data (with technical replicates)
data_repeated_measure_1

Repeated measure sample data
data_repeated_measure_3bLock

Sample data in (repeated-measures design with two reference genes)
efficiency

Amplification efficiency statistics and standard curves
plotFactor

Bar plot of gene(s) expression for 1-, 2-, or 3-factor experiments
plotSingleGene

Bar plot of single gene expression (Delta Delta Ct method)
data_1factor_one_ref_Eff

Sample qPCR data (two different conditions)
compute_wDCt

Cleaning data and weighted delta Ct (wDCt) calculation
ANOVA_DCt

Delta Ct ANOVA analysis
Means_DDCt

Delta Delta Ct pairwise comparisons using a fitted model
TTEST_DDCt

Delta Delta Ct method t-test analysis
WILCOX_DDCt

Delta Delta Ct method wilcox.test analysis
ANOVA_DDCt

Delta Delta Ct ANOVA analysis with optional model specification
data_1factor_one_ref

Sample qPCR data (two different conditions)
data_3factor

Sample data (three factor)
data_2factor

Sample data (two factor)
data_2factorBlock3ref

Sample data in (two factor with blocking factor and 3 reference genes)
data_efficiency1

Sample qPCR data: amplification efficiency 1
data_Lee_etal2020qPCR

Sample data (with technical replicates)
data_2factor3ref

Sample data in (two factor with blocking factor)
data_Heffer2020PlosOne

Sample data in (multi-group design with 6 target genes)
data_efficiency_Yuan2006PMCBioinf

Sample qPCR data: amplification efficiency 2
data_1factor

Sample data (one factor three levels)
data_1factor_Two_ref

Sample qPCR data (one target and two reference genes under two different conditions)
data_2factorBlock

Sample data in (two factor with blocking factor)
data_Yuan2006PMCBioinf

Sample data in (one factor with one reference gene)