Quantitative Polymerase Chain Reaction (qPCR) Data Mining and Machine Learning Toolkit

Extracts features from amplification curve data of quantitative Polymerase Chain Reactions (qPCR) (Pabinger S. et al. (2014) ) for machine learning purposes. Helper functions prepare the amplification curve data for processing as functional data (e.g., Hausdorff distance) or enable the plotting of amplification curve classes (negative, ambiguous, positive). The hookreg() and hookregNL() functions (Burdukiewicz M. et al. (2018) ) can be used to predict amplification curves with an hook effect-like curvature. The pcrfit_single() function can be used to extract features from an amplification curve.


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PCRedux Quantitative PCR Machine Learning Helper Tool

Installation

PCRedux is available on CRAN. However, you can install the latest development version of the code using the following code:

source("https://install-github.me/devSJR/PCRedux")

Manual

The manual is available online.

News

The 0.2.6 release adds more data sets and features

Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("PCRedux")

1.0-2 by Stefan Roediger, 21 days ago


https://CRAN.R-project.org/package=PCRedux


Report a bug at https://github.com/PCRuniversum/PCRedux/issues


Browse source code at https://github.com/cran/PCRedux


Authors: Stefan Roediger [cre, aut] , Michal Burdukiewicz [aut] , Andrej-Nikolai Spiess [aut] , Konstantin A. Blagodatskikh [aut] , Dominik Rafacz [ctb]


Documentation:   PDF Manual  


MIT + file LICENSE license


Imports bcp, changepoint, chipPCR, ecp, fda.usc, MBmca, pbapply, pracma, qpcR, robustbase, shiny, stats, utils, zoo

Suggests DT, FFTrees, knitr, RDML, randomForest, readxl, rmarkdown, spelling, testthat, xtable


See at CRAN