Package: aggregateBioVar
Type: Package
Title:  Differential Gene Expression Analysis for Multi-subject scRNA-seq
Version: 1.21.0
Authors@R: c(
    person(given = "Jason", family = "Ratcliff",
        email = "jason-ratcliff@uiowa.edu", role = c("aut", "cre"),
        comment = c(ORCID = "0000-0001-7079-334X")),
    person(given = "Andrew", family = "Thurman", 
        email = "andrew.thurman2@gmail.com", role = "aut"),
    person(given = "Michael", family = "Chimenti", 
        email = "michael-chimenti@uiowa.edu", role = "ctb"),
    person(given = "Alejandro", family = "Pezzulo", 
        email = "alejandro-pezzulo@uiowa.edu", role = "ctb")
    )
URL: https://github.com/jasonratcliff/aggregateBioVar
BugReports: https://github.com/jasonratcliff/aggregateBioVar/issues
Description: For single cell RNA-seq data collected from more than 
    one subject (e.g. biological sample or technical replicates),
    this package contains tools to summarize single cell gene expression
    profiles at the level of subject. A SingleCellExperiment object is taken as
    input and converted to a list of SummarizedExperiment objects, where each
    list element corresponds to an assigned cell type.
    The SummarizedExperiment objects contain aggregate gene-by-subject
    count matrices and inter-subject column metadata for individual subjects
    that can be processed using downstream bulk RNA-seq tools.
License: GPL-3
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.1.1
biocViews: Software, SingleCell, RNASeq, Transcriptomics,
    Transcription, GeneExpression, DifferentialExpression
Depends: 
    R (>= 4.0)
Imports:
    stats,
    methods,
    S4Vectors,
    SummarizedExperiment,
    SingleCellExperiment,
    Matrix,
    tibble,
    rlang
Suggests:
    BiocStyle,
    magick,
    knitr,
    rmarkdown,
    testthat,
    BiocGenerics,
    DESeq2,
    magrittr,
    dplyr,
    ggplot2,
    cowplot,
    ggtext,
    RColorBrewer,
    pheatmap,
    viridis
git_url: https://git.bioconductor.org/packages/aggregateBioVar
git_branch: devel
git_last_commit: b0e2560
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
