Package: plaid
Title: PLAID ultrafast gene set enrichment scoring
Version: 1.0.0
Authors@R: c(
    person("Ivo", "Kwee", , "ivo.kwee@bigomics.ch", role = "aut",
        comment = c(ORCID = "0000-0002-2751-4218")),
    person("Antonino", "Zito", , "antonino.zito@bigomics.ch", role = "cre",
        comment = c(ORCID = "0000-0003-1931-984X"))
  )
Description: PLAID (Pathway Level Average Intensity Detection) is an
        ultra-fast method to compute single-sample enrichment scores
        for gene expression or proteomics data. For each sample, plaid
        computes the gene set score as the average intensity of the
        genes/proteins in the gene set. The output is a gene set score
        matrix suitable for further analyses.
License: GPL-3
URL: https://github.com/bigomics/plaid,
        https://bigomics.github.io/plaid/
BugReports: https://github.com/bigomics/plaid/issues
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Suggests: BiocStyle, knitr, rmarkdown, sparseMatrixStats, testthat (>=
        3.0.0)
Config/testthat/edition: 3
biocViews: GeneSetEnrichment, GeneExpression, Proteomics
Depends: R (>= 4.3.3)
Imports: Matrix, MatrixGenerics, matrixStats, methods, parallel, Rfast,
        qlcMatrix, GSVA, fgsea, SummarizedExperiment, BiocSet, stats,
        utils
VignetteBuilder: knitr
Config/pak/sysreqs: make libmagick++-dev gsfonts libicu-dev libpng-dev
        libxml2-dev libssl-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 13:06:07 UTC
RemoteUrl: https://github.com/bioc/plaid
RemoteRef: RELEASE_3_23
RemoteSha: 78c9bca64d7192f48bf762d1deafdb4ce3d4d720
NeedsCompilation: no
Packaged: 2026-04-29 23:52:41 UTC; root
Author: Ivo Kwee [aut] (ORCID: <https://orcid.org/0000-0002-2751-4218>),
  Antonino Zito [cre] (ORCID: <https://orcid.org/0000-0003-1931-984X>)
Maintainer: Antonino Zito <antonino.zito@bigomics.ch>
Built: R 4.6.0; ; 2026-04-29 23:56:49 UTC; windows
