Package: PCRedux
Type: Package
Title: Quantitative Polymerase Chain Reaction (qPCR) Data Mining and
        Machine Learning Toolkit
Version: 1.1-2
Date: 2022-05-11
Authors@R: c(person("Stefan", "Roediger", 
             email = "stefan.roediger@b-tu.de", 
             comment = c(ORCID = "0000-0002-1441-6512"),
             role = c("cre", "aut")),
             person("Michal", "Burdukiewicz", 
             email = "michalburdukiewicz@gmail.com", 
             comment = c(ORCID = "0000-0001-8926-582X"),
             role = c("aut")),
             person("Andrej-Nikolai", "Spiess", 
             email = "a.spiess@uke.de", 
             comment = c(ORCID = "0000-0002-9630-4724"),
             role = c("aut")),
             person("Konstantin A.", "Blagodatskikh", 
             email = "k.blag@yandex.ru",
             comment = c(ORCID = "0000-0002-8732-0300"),
             role = c("aut")),
             person("Dominik", "Rafacz", 
             email = "dominikrafacz@gmail.com",
             comment = c(ORCID = "0000-0003-0925-1909"),
             role = c("ctb")))
Description: 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. PCRedux was published in the Journal of
        Open Source Software (<10.21105/joss.04407>).
License: MIT + file LICENSE
LazyLoad: yes
LazyData: yes
URL: https://CRAN.R-project.org/package=PCRedux
BugReports: https://github.com/PCRuniversum/PCRedux/issues
Depends: R (>= 3.5.0)
Imports: changepoint, chipPCR, ecp, fda.usc, MBmca, pbapply, pracma,
        qpcR, robustbase, segmented, shiny, stats, utils, zoo
Suggests: DT, future, knitr, listenv, RDML, readxl, rmarkdown,
        shinycssloaders, spelling, testthat, xtable
NeedsCompilation: no
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
RoxygenNote: 7.3.2
Config/pak/sysreqs: cmake libfreetype6-dev libglu1-mesa-dev make
        texlive libpng-dev libuv1-dev libgl1-mesa-dev zlib1g-dev
Repository: https://pcruniversum.r-universe.dev
Date/Publication: 2024-07-28 15:11:13 UTC
RemoteUrl: https://github.com/pcruniversum/pcredux
RemoteRef: HEAD
RemoteSha: 28ed591f181cb68ac3dd93da319010ff48078e4a
Packaged: 2026-06-09 08:00:09 UTC; root
Author: Stefan Roediger [cre, aut] (ORCID:
    <https://orcid.org/0000-0002-1441-6512>),
  Michal Burdukiewicz [aut] (ORCID:
    <https://orcid.org/0000-0001-8926-582X>),
  Andrej-Nikolai Spiess [aut] (ORCID:
    <https://orcid.org/0000-0002-9630-4724>),
  Konstantin A. Blagodatskikh [aut] (ORCID:
    <https://orcid.org/0000-0002-8732-0300>),
  Dominik Rafacz [ctb] (ORCID: <https://orcid.org/0000-0003-0925-1909>)
Maintainer: Stefan Roediger <stefan.roediger@b-tu.de>