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PCRedux

swMATH ID: 43256
Software Authors: Burdukiewicz, Michał; Spiess, Andrej-Nikolai; Rafacz, Dominik; Blagodatskikh, Konstantin; Rödiger, Stefan
Description: R package PCRedux: 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) <doi:10.1016/j.bdq.2014.08.002>) 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) <doi:10.1016/j.bdq.2018.08.001>) 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.
Homepage: https://cran.r-project.org/web/packages/PCRedux/index.html
Source Code:  https://github.com/cran/PCRedux
Dependencies: R
Keywords: R; R package; PCRedux; Quantitative PCR; Machine Learning Toolkit; qPCR; quantitative polymerase chain reaction; Journal of Open Source Software
Related Software: robustbase; rrcov; RKWard; qpcR; rctrack; ecp; Bioconductor; fda.usc; bcp; pracma; shiny; chipPCR; MBmca; testthat; R
Cited in: 0 Documents

Standard Articles

1 Publication describing the Software Year
PCRedux: A Quantitative PCR Machine Learning Toolkit Link
Michał Burdukiewicz; Andrej-Nikolai Spiess; Dominik Rafacz; Konstantin Blagodatskikh; Stefan Rödiger
2022