Package: Rcurvep
Type: Package
Title: Concentration-Response Data Analysis using Curvep
Version: 1.3.1
Authors@R: c(
        person("Jui-Hua", "Hsieh", email = "juihua.hsieh@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-1620-1571")), 
        person("Alexander", "Sedykh", role = c("aut")),
        person("Fred", "Parham", role = c("ctb")),
        person("Yuhong", "Wang", role = c("ctb")),
        person("Tongan", "Zhao", role = c("aut")),
        person("Ruili", "Huang", role = c("ctb"))
        )
Description: 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).
Language: en-US
BugReports: https://github.com/moggces/Rcurvep/issues
License: MIT + file LICENSE
URL: https://github.com/moggces/Rcurvep
Encoding: UTF-8
LazyData: true
Imports: dplyr (>= 1.0.0), tibble, magrittr, tidyselect, boot, tidyr,
        purrr, rlang, stringr, ggplot2, Rdpack, methods, rJava, furrr
RdMacros: Rdpack
Suggests: testthat, knitr, rmarkdown, tcpl, future
VignetteBuilder: knitr
SystemRequirements: Java
RoxygenNote: 7.2.3
Depends: R (>= 3.5)
NeedsCompilation: no
Packaged: 2024-01-08 22:03:06 UTC; hsiehj2
Author: Jui-Hua Hsieh [aut, cre] (<https://orcid.org/0000-0003-1620-1571>),
  Alexander Sedykh [aut],
  Fred Parham [ctb],
  Yuhong Wang [ctb],
  Tongan Zhao [aut],
  Ruili Huang [ctb]
Maintainer: Jui-Hua Hsieh <juihua.hsieh@gmail.com>
Repository: CRAN
Date/Publication: 2024-01-09 08:20:32 UTC
Built: R 4.5.0; ; 2025-01-22 13:33:31 UTC; unix
