Rcurvep: Concentration-Response Data Analysis using Curvep

An R interface for processing concentration-response datasets using Curvep, a response noise filtering algorithm. The algorithm was described in the publications (Sedykh A et al. (2011) <doi:10.1289/ehp.1002476> and Sedykh A (2016) <doi:10.1007/978-1-4939-6346-1_14>). Other parametric fitting approaches (e.g., Hill equation) are also adopted for ease of comparison. 3-parameter Hill equation from 'tcpl' package (Filer D et al., <doi:10.1093/bioinformatics/btw680>) and 4-parameter Hill equation from Curve Class2 approach (Wang Y et al., <doi:10.2174/1875397301004010057>) are available. Also, methods for calculating the confidence interval around the activity metrics are also provided. The methods are based on the bootstrap approach to simulate the datasets (Hsieh J-H et al. <doi:10.1093/toxsci/kfy258>). The simulated datasets can be used to derive the baseline noise threshold in an assay endpoint. This threshold is critical in the toxicological studies to derive the point-of-departure (POD).

Version: 1.3.1
Depends: R (≥ 3.5)
Imports: dplyr (≥ 1.0.0), tibble, magrittr, tidyselect, boot, tidyr, purrr, rlang, stringr, ggplot2, Rdpack, methods, rJava, furrr
Suggests: testthat, knitr, rmarkdown, tcpl, future
Published: 2024-01-09
Author: Jui-Hua Hsieh ORCID iD [aut, cre], Alexander Sedykh [aut], Fred Parham [ctb], Yuhong Wang [ctb], Tongan Zhao [aut], Ruili Huang [ctb]
Maintainer: Jui-Hua Hsieh <juihua.hsieh at gmail.com>
BugReports: https://github.com/moggces/Rcurvep/issues
License: MIT + file LICENSE
URL: https://github.com/moggces/Rcurvep
NeedsCompilation: no
SystemRequirements: Java
Language: en-US
Materials: README NEWS
CRAN checks: Rcurvep results


Reference manual: Rcurvep.pdf
Vignettes: Parallel Computing Examples Using Rcurvep
Practical applications using Rcurvep package


Package source: Rcurvep_1.3.1.tar.gz
Windows binaries: r-devel: Rcurvep_1.3.1.zip, r-release: Rcurvep_1.3.1.zip, r-oldrel: Rcurvep_1.3.1.zip
macOS binaries: r-release (arm64): Rcurvep_1.3.1.tgz, r-oldrel (arm64): Rcurvep_1.3.1.tgz, r-release (x86_64): Rcurvep_1.3.1.tgz
Old sources: Rcurvep archive


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