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qpcR (version 1.1-3)

Modelling and analysis of real-time PCR data

Description

Model fitting, optimal model selection and calculation of various features that are essential in the analysis of quantitative real-time polymerase chain reaction (qPCR).

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Version

Install

install.packages('qpcR')

Monthly Downloads

1,483

Version

1.1-3

License

GPL (>= 2)

Maintainer

Andrej-Nikolai Spiess

Last Published

June 10th, 2025

Functions in qpcR (1.1-3)

Simple wrapper function for fast model fitting

Simple qPCR data import function (i.e. from text files or clipboard).

General error propagation function using covariates and Monte Carlo simulations

Value prediction from a fitted sigmoidal model

Evidence ratio for model comparison with AIC or AICc

Combinatorial elimination of plateau and ground phase cycles

Summarize measures for the goodness-of-fit

Building a model which averages a batch of qPCR curves

Akaike's second-order corrected Information Criterion for small sample sizes

Root-mean-squared-error of a fitted model

Another qPCR dilution experiment with replicates (Roche Lightcycler)

Calculation of qPCR efficiency by dilution curve analysis

R-square value of a fitted model

Plot method for data of class 'ratiocalc' which displays barplots of ratios with error bars

Formatting of PCR data with or without replicates for analysis

Comparison of several sigmodal models by RMSE within the exponential region

Batch calculation of qPCR efficiency and several other important qPCR parameters with different methods

Plotting PCR data with fitted curves

Calculation of PCR efficiency by the window-of-linearity method

PCR data from 15 different testicular biopsies (Roche Lightcycler)

Calculation of qPCR efficiency and several other important qPCR parameters

Selection of the best model by nested F-tests

Create nonlinear models from a dataframe and coerce them into a list

Modelling and analysis of real-time PCR data

The amplification efficiency curve of a fitted object

qPCR dilution experiment with replicates and different runs from Rutledge et al (Biorad Opticon)

A qPCR dilution experiment with replicates (Stratagene MXPro3000P)

qPCR dilution experiment with replicates (Roche Lightcycler)

Confidence bands for a sigmoidal fit

Calculation of ratios/propagated errors/t-statistics for all permutations/combinations of qPCR runs with or without reference data

Calculation of PCR efficiency by fitting an exponential model

Residual variance of a fitted model