Package: sccomp
Type: Package
Title: Differential Composition and Variability Analysis for
        Single-Cell Data
Version: 2.5.0
Date: 2026-05-11
Authors@R: c(person("Stefano", "Mangiola", email = "stefano.mangiola@unimelb.edu.au", role = c("aut", "cre")), person("Alexandra J.", "Roth-Schulze", role = "aut"), person("Marie", "Trussart", role = "aut"), person("Enrique", "Zozaya-Valdés", role = "aut"), person("Mengyao", "Ma", role = "aut"), person("Zijie", "Gao", role = "aut"), person("Alan F.", "Rubin", role = "aut"), person("Terence P.", "Speed", role = "aut"), person("Heejung", "Shim", role = "aut"), person("Anthony T.", "Papenfuss", role = "aut"))
Description: Comprehensive R package for differential composition and
        variability analysis in single-cell RNA sequencing, CyTOF, and
        microbiome data. Provides robust Bayesian modeling with outlier
        detection, random effects, and advanced statistical methods for
        cell type proportion analysis. Features include probabilistic
        outlier identification, mixed-effect modeling, differential
        variability testing, and comprehensive visualization tools.
        Perfect for cancer research, immunology, developmental biology,
        and single-cell genomics applications.
License: GPL-3
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
Depends: R (>= 4.3.0), instantiate (>= 0.2.3)
Imports: stats, boot, utils, scales, lifecycle, rlang, tidyselect,
        magrittr, crayon, cli, fansi, dplyr, tidyr, purrr, tibble,
        ggplot2, ggrepel, ggside, patchwork, forcats, readr, stringr,
        glue, SingleCellExperiment, posterior
Suggests: mgcv, knitr, rmarkdown, BiocStyle, testthat (>= 3.0.0),
        markdown, loo, prettydoc, SeuratObject, tidyseurat,
        tidySingleCellExperiment, bayesplot, remotes
Additional_repositories: https://mc-stan.org/r-packages/
SystemRequirements: CmdStan
        (https://mc-stan.org/users/interfaces/cmdstan), C++14
biocViews: Bayesian, Regression, DifferentialExpression, SingleCell,
        Metagenomics, FlowCytometry, Spatial
LazyData: true
VignetteBuilder: knitr
URL: https://github.com/MangiolaLaboratory/sccomp,
        https://mangiolalaboratory.github.io/sccomp/
BugReports: https://github.com/MangiolaLaboratory/sccomp/issues
Config/testthat/edition: 3
Config/testthat/parallel: false
Config/testthat/snapshot/parallel: false
Config/testthat/snapshot/parallel/workers: 2
Config/roxygen2/version: 8.0.0
Config/pak/sysreqs: cmake make libicu-dev libuv1-dev libx11-dev
        zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-08-07 01:28:00 UTC
RemoteUrl: https://github.com/bioc/sccomp
RemoteRef: HEAD
RemoteSha: 99257304418fcbd70fa33357549b00cfddd2df7a
NeedsCompilation: no
Packaged: 2026-10-06 09:04:30 UTC; root
Author: Stefano Mangiola [aut, cre],
  Alexandra J. Roth-Schulze [aut],
  Marie Trussart [aut],
  Enrique Zozaya-Valdés [aut],
  Mengyao Ma [aut],
  Zijie Gao [aut],
  Alan F. Rubin [aut],
  Terence P. Speed [aut],
  Heejung Shim [aut],
  Anthony T. Papenfuss [aut]
Maintainer: Stefano Mangiola <stefano.mangiola@unimelb.edu.au>