Learn R Programming

⚠️There's a newer version (1.4-2) of this package.Take me there.

qpcR (version 1.1-5)

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).

Copy Link

Version

Install

install.packages('qpcR')

Monthly Downloads

1,483

Version

1.1-5

License

GPL (>= 2)

Maintainer

Andrej-Nikolai Spiess

Last Published

June 10th, 2025

Functions in qpcR (1.1-5)

Residual sum-of-squares of a fitted model

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

A residuals bar-plot with colour-coded bars

Summarize measures for the goodness-of-fit

Evidence ratio for model comparison with AIC or AICc

Residual variance of a fitted model

A qPCR dilution experiment with replicates (Stratagene MXPro3000P)

Calculation of PCR efficiency by fitting an exponential model

qPCR dilution experiment with replicates (Roche Lightcycler)

The amplification efficiency curve of a fitted object

General error propagation function using covariates and Monte Carlo simulations

Combinatorial elimination of plateau and ground phase cycles

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

A qPCR experiment with replicates and simulated inhibition (Lightcycler 480) from Guescini et al

A qPCR dilution experiment with replicates (Lightcycler 480) from Guescini et al

Selection of the best model by nested F-tests, likelihood ratios or Akaike weights

Calculation of qPCR efficiency by dilution curve analysis

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

Calculation of likelihood ratios for nested models

Formatting of PCR data with or without replicates for analysis

Modelling and analysis of real-time PCR data

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

Value prediction from a fitted sigmoidal model

Allen's PRESS (Prediction Sum-Of-Squares) statistic

Calculation of Akaike weights/relative likelihoods/delta-AICs

Another qPCR dilution experiment with replicates (Roche Lightcycler)

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

R-square value of a fitted model

PCR data from 15 different testicular biopsies (Roche Lightcycler)

Plotting PCR data with fitted curves

Building a model which averages a batch of qPCR curves

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

Calculation of qPCR efficiency and several other important qPCR parameters

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

Comparison of several sigmodal models by RMSE within the exponential region

Root-mean-squared-error of a fitted model

Simple wrapper function for fast model fitting

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

Confidence bands for a sigmoidal fit