Package: RUCova
Title: Removes unwanted covariance from mass cytometry data
Version: 1.2.0
Authors@R: person("Rosario", "Astaburuaga-García", email = "rosario.astaburuaga@charite.de", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-1179-4080"))
Description: Mass cytometry enables the simultaneous measurement of
        dozens of protein markers at the single-cell level, producing
        high dimensional datasets that provide deep insights into
        cellular heterogeneity and function. However, these datasets
        often contain unwanted covariance introduced by technical
        variations, such as differences in cell size, staining
        efficiency, and instrument-specific artifacts, which can
        obscure biological signals and complicate downstream analysis.
        This package addresses this challenge by implementing a robust
        framework of linear models designed to identify and remove
        these sources of unwanted covariance. By systematically
        modeling and correcting for technical noise, the package
        enhances the quality and interpretability of mass cytometry
        data, enabling researchers to focus on biologically relevant
        signals.
License: GPL-3
Encoding: UTF-8
biocViews: Software, SingleCell
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Suggests: knitr, rmarkdown, BiocManager, BiocStyle, remotes, ggpubr,
        ggcorrplot, ggh4x, testthat (>= 3.0.0)
Imports: dplyr, fastDummies, ggplot2, stringr, tibble, Matrix,
        ComplexHeatmap, grid, circlize, SingleCellExperiment,
        SummarizedExperiment, tidyverse, tidyr, magrittr, S4Vectors
VignetteBuilder: knitr
Depends: R (>= 4.4.0)
SystemRequirements: GNU make
BugReports: https://github.com/molsysbio/RUCova/issues
URL: https://github.com/molsysbio/RUCova
LazyData: true
Config/testthat/edition: 3
Config/pak/sysreqs: libfontconfig1-dev libfreetype6-dev libfribidi-dev
        make libharfbuzz-dev libicu-dev libjpeg-dev libpng-dev
        libtiff-dev libwebp-dev libxml2-dev libssl-dev perl libx11-dev
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:35:49 UTC
RemoteUrl: https://github.com/bioc/RUCova
RemoteRef: RELEASE_3_22
RemoteSha: 2102db28ee5d534b54aeeccf727c2cf1e0176146
NeedsCompilation: no
Packaged: 2026-02-27 08:48:30 UTC; root
Author: Rosario Astaburuaga-García [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-1179-4080>)
Maintainer: Rosario Astaburuaga-García <rosario.astaburuaga@charite.de>
Built: R 4.5.2; ; 2026-02-27 08:50:20 UTC; windows
