Package: cytofQC
Type: Package
Title: Labels normalized cells for CyTOF data and assigns probabilities
        for each label
Version: 2.0.0
Authors@R: c(
    person("Jill", "Lundell", role = c("aut", "cre"), email = "jflundell@gmail.com", comment = c(ORCID = "0000-0002-6048-4700")),
    person("Kelly", "Street", role = "aut", email = "street.kelly@gmail.com", comment = c(ORCID = "0000-0001-6379-5013")))
Description: cytofQC is a package for initial cleaning of CyTOF data.
        It uses a semi-supervised approach for labeling cells with
        their most likely data type (bead, doublet, debris, dead) and
        the probability that they belong to each label type. This
        package does not remove data from the dataset, but provides
        labels and information to aid the data user in cleaning their
        data. Our algorithm is able to distinguish between doublets and
        large cells.
License: Artistic-2.0
URL: https://github.com/jillbo1000/cytofQC
BugReports: https://github.com/jillbo1000/cytofQC/issues
biocViews: Software, SingleCell, Annotation
Encoding: UTF-8
Imports: CATALYST, flowCore, e1071, EZtune, gbm, ggplot2, matrixStats,
        randomForest, rmarkdown, SingleCellExperiment, stats,
        SummarizedExperiment, ssc, S4Vectors, graphics, methods,
        mixtools
RoxygenNote: 7.3.3
Suggests: gridExtra, knitr, RColorBrewer, testthat, uwot
VignetteBuilder: knitr
Config/pak/sysreqs: libcairo2-dev cmake libfontconfig1-dev
        libfreetype6-dev libfribidi-dev libglpk-dev make
        libharfbuzz-dev libicu-dev libjpeg-dev libpng-dev libtiff-dev
        libuv1-dev libwebp-dev libxml2-dev libssl-dev perl zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 13:00:17 UTC
RemoteUrl: https://github.com/bioc/cytofQC
RemoteRef: RELEASE_3_23
RemoteSha: 6608c68c1e29ce0ab80b49f8b6fbf8562a9e5474
NeedsCompilation: no
Packaged: 2026-04-29 20:54:59 UTC; root
Author: Jill Lundell [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-6048-4700>),
  Kelly Street [aut] (ORCID: <https://orcid.org/0000-0001-6379-5013>)
Maintainer: Jill Lundell <jflundell@gmail.com>
Built: R 4.6.0; ; 2026-04-29 20:59:32 UTC; windows
