Package: scp
Title: Mass Spectrometry-Based Single-Cell Proteomics Data Analysis
Version: 1.20.0
Authors@R: 
    c(person("Christophe", "Vanderaa",
              email = "christophe.vanderaa@ugent.be",
              comment = c(ORCID = "0000-0001-7443-5427"),
              role = c("aut", "cre")),
      person("Laurent", "Gatto",
              email = "laurent.gatto@uclouvain.be",
              comment = c(ORCID = "0000-0002-1520-2268"),
              role = "aut"),
      person("Léopold", "Guyot", role = "ctb"))
Description: Utility functions for manipulating, processing, and
        analyzing mass spectrometry-based single-cell proteomics data.
        The package is an extension to the 'QFeatures' package and
        relies on 'SingleCellExpirement' to enable single-cell
        proteomics analyses. The package offers the user the
        functionality to process quantitative table (as generated by
        MaxQuant, Proteome Discoverer, and more) into data tables ready
        for downstream analysis and data visualization.
Depends: R (>= 4.3.0), QFeatures (>= 1.19.1)
Imports: IHW, ggplot2, ggrepel, matrixStats, metapod, methods,
        MsCoreUtils, MultiAssayExperiment, nipals, RColorBrewer,
        S4Vectors, SingleCellExperiment, SummarizedExperiment, stats,
        utils
Suggests: BiocStyle, BiocGenerics, MsDataHub (>= 1.3.3), impute, knitr,
        patchwork, preprocessCore, rmarkdown, scater, scpdata, sva,
        testthat, vdiffr, vsn, uwot
License: Artistic-2.0
Encoding: UTF-8
VignetteBuilder: knitr
biocViews: GeneExpression, Proteomics, SingleCell, MassSpectrometry,
        Preprocessing, CellBasedAssays
BugReports: https://github.com/UCLouvain-CBIO/scp/issues
URL: https://UCLouvain-CBIO.github.io/scp
Roxygen: list(markdown=TRUE)
RoxygenNote: 7.3.2
Config/pak/sysreqs: coinor-symphony coinor-libsymphony-dev libglpk-dev
        make libicu-dev libxml2-dev libssl-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:03:14 UTC
RemoteUrl: https://github.com/bioc/scp
RemoteRef: RELEASE_3_22
RemoteSha: 9c3cf13d4b57a228c69e43ecced575d94d269a4f
NeedsCompilation: no
Packaged: 2026-03-04 08:27:35 UTC; root
Author: Christophe Vanderaa [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-7443-5427>),
  Laurent Gatto [aut] (ORCID: <https://orcid.org/0000-0002-1520-2268>),
  Léopold Guyot [ctb]
Maintainer: Christophe Vanderaa <christophe.vanderaa@ugent.be>
Built: R 4.5.2; ; 2026-03-04 08:31:54 UTC; windows
