Package: cytoKernel
Type: Package
Title: Differential expression using kernel-based score test
Version: 1.19.0
Date: 2021-09-27
Authors@R: 
    c(person("Tusharkanti", "Ghosh",
           email = "tusharkantighosh30@gmail.com",
           role = c("aut", "cre")),
    person("Victor", "Lui",
           role = c("aut")),
    person("Pratyaydipta", "Rudra",
           role = c("aut")),
    person("Souvik", "Seal",
           role = c("aut")), 
    person("Thao", "Vu",
           role = c("aut")),
    person("Elena", "Hsieh",
           role = c("aut")),
    person("Debashis", "Ghosh",
           role = c("aut", "cph")))
Imports: Rcpp, SummarizedExperiment, utils, methods, ComplexHeatmap,
        circlize, ashr, data.table, BiocParallel, dplyr, stats,
        magrittr, rlang, S4Vectors
LinkingTo: Rcpp
Depends: R (>= 4.1)
Suggests: knitr, rmarkdown, BiocStyle, testthat
VignetteBuilder: knitr
Encoding: UTF-8
License: GPL-3
Description: cytoKernel implements a kernel-based score test to
        identify differentially expressed features in high-dimensional
        biological experiments. This approach can be applied across
        many different high-dimensional biological data including gene
        expression data and dimensionally reduced cytometry-based
        marker expression data. In this R package, we implement
        functions that compute the feature-wise p values and their
        corresponding adjusted p values. Additionally, it also computes
        the feature-wise shrunk effect sizes and their corresponding
        shrunken effect size. Further, it calculates the percent of
        differentially expressed features and plots user-friendly
        heatmap of the top differentially expressed features on the
        rows and samples on the columns.
biocViews: ImmunoOncology, Proteomics, SingleCell, Software,
        OneChannel, FlowCytometry, DifferentialExpression,
        GeneExpression, Clustering
BugReports: https://github.com/Ghoshlab/cytoKernel/issues
RoxygenNote: 7.1.2
Config/pak/sysreqs: libpng-dev perl zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:57:00 UTC
RemoteUrl: https://github.com/bioc/cytoKernel
RemoteRef: HEAD
RemoteSha: 4506a4f9a9a5f860a79d6f89709aa318778202b0
NeedsCompilation: yes
Packaged: 2026-07-04 00:25:17 UTC; root
Author: Tusharkanti Ghosh [aut, cre],
  Victor Lui [aut],
  Pratyaydipta Rudra [aut],
  Souvik Seal [aut],
  Thao Vu [aut],
  Elena Hsieh [aut],
  Debashis Ghosh [aut, cph]
Maintainer: Tusharkanti Ghosh <tusharkantighosh30@gmail.com>