Package: CytoProfile
Title: Cytokine Profiling Analysis Tool
Version: 0.2.4
Authors@R: c(
    person("Shubh", "Saraswat", email = "shubh.saraswat00@gmail.com", role = c("cre", "aut", "cph"),
    comment = c(ORCID = "0009-0009-2359-1484")),
    person("Xiaohua Douglas", "Zhang", email = "douglas.zhang@uky.edu", role = "aut",
    comment = c(ORCID = "0000-0002-2486-7931")))
Description: Provides comprehensive cytokine profiling analysis through
        quality control using biologically meaningful cutoffs on raw
        cytokine measurements and by testing for distributional
        symmetry to recommend appropriate transformations. Offers
        exploratory data analysis with summary statistics, enhanced
        boxplots, and barplots, along with univariate and multivariate
        analytical capabilities for in-depth cytokine profiling such as
        Principal Component Analysis based on Andrzej Maćkiewicz and
        Waldemar Ratajczak (1993) <doi:10.1016/0098-3004(93)90090-R>,
        Sparse Partial Least Squares Discriminant Analysis based on Lê
        Cao K-A, Boitard S, and Besse P (2011)
        <doi:10.1186/1471-2105-12-253>, Random Forest based on Breiman,
        L. (2001) <doi:10.1023/A:1010933404324>, and Extreme Gradient
        Boosting based on Tianqi Chen and Carlos Guestrin (2016)
        <doi:10.1145/2939672.2939785>.
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
URL: https://github.com/saraswatsh/CytoProfile,
        https://cytoprofile.cytokineprofile.org/
Depends: R (>= 4.3)
Imports: mixOmics, dplyr, tidyr, pROC, plot3D, caret, xgboost,
        randomForest, pheatmap, e1071, ggplot2, ggrepel, gridExtra,
        reshape2, lifecycle, data.table
Suggests: spelling, BiocManager, Ckmeans.1d.dp, prodlim, testthat,
        knitr, rmarkdown, devtools
NeedsCompilation: no
License: GPL (>= 2)
LazyData: true
VignetteBuilder: knitr
BugReports: https://github.com/saraswatsh/CytoProfile/issues
Language: en-US
Config/pak/sysreqs: cmake libfreetype6-dev libglpk-dev libglu1-mesa-dev
        make texlive libicu-dev libpng-dev libuv1-dev libxml2-dev
        libgl1-mesa-dev zlib1g-dev
Repository: https://saraswatsh.r-universe.dev
Date/Publication: 2026-02-27 17:54:17 UTC
RemoteUrl: https://github.com/saraswatsh/cytoprofile
RemoteRef: HEAD
RemoteSha: ba676b9ef0fa79ce42917523ec23dd518e7436e6
Packaged: 2026-10-09 12:06:35 UTC; root
Author: Shubh Saraswat [cre, aut, cph] (ORCID:
    <https://orcid.org/0009-0009-2359-1484>),
  Xiaohua Douglas Zhang [aut] (ORCID:
    <https://orcid.org/0000-0002-2486-7931>)
Maintainer: Shubh Saraswat <shubh.saraswat00@gmail.com>