DESCRIPTION

Package: OSCA.multisample
Title: OSCA for Multiple Samples
Version: 1.15.4
Date: 2025-01-20
Authors@R: c( 
        person('Robert', 'Amezquita', role = c('aut')), 
        person('Aaron', 'Lun', role = c('aut')),
        person('Stephanie', 'Hicks', role = 'aut'), 
        person('Raphael', 'Gottardo', role = 'aut'),
        person("Alan", "O'Callaghan", role = 'cre', email = "alan.ocallaghan@outlook.com")
    )
Description: 
    Deploys the multi-sample analysis chapters for the "Orchestrating Single Cell Analysis with Bioconductor" book.
    This describes the handling of multiple samples in a single-cell RNA-seq analysis, 
    starting with integration of multiple datasets into a common space for consistent analyses,
    differential expression comparisons between conditions based on pseudo-bulk samples,
    and differential abundance analyses for cell subpopulations.
    It is intended for readers who are already familiar with basic single-cell analyses, possibly after reading some of the prior books in this collection.
Depends: batchelor,
    BiocSingular,
    bluster,
    DropletUtils,
    edgeR,
    gridExtra,
    igraph,
    MouseGastrulationData,
    pheatmap,
    rebook,
    rmarkdown,
    Rtsne,
    scater,
    scran,
    scuttle,
    SingleR,
    TENxPBMCData,
    TSCAN,
    uwot,
    viridis
Imports: 
    OSCA.workflows
Suggests: 
    OSCA.basic,
    rmarkdown,
    knitr
VignetteBuilder: knitr
License: CC BY
URL: https://github.com/OSCA-source/OSCA.multisample
biocViews: 
    ImmunoOncologyWorkflow,
    Workflow, 
    SingleCellWorkflow