Package: SpaceTrooper
Type: Package
Title: SpaceTrooper performs Quality Control analysis of Image-Based spatial
Version: 1.1.2
Authors@R:
        c(person("Dario", "Righelli",
            email="dario.righelli@gmail.com",
            role=c("aut", "cre"),
            comment=c(ORCID="0000-0003-1504-3583")),
        person(given="Benedetta", family="Banzi", role="aut"),
        person(given="Oriana", family="Romano", role="ctb"),
        person(given="Matteo", family="Merchionni", role="ctb"),
        person(given="Mattia", family="Forcato", role="ctb"),
        person(given="Silvio", family="Bicciato", role="aut"),
        person(given="Davide", family="Risso", role="ctb"))
Description: SpaceTrooper performs Quality Control analysis using data driven 
    GLM models of Image-Based spatial data, providing exploration plots, 
    QC metrics computation, outlier detection.
    It implements a GLM strategy for the detection of low quality cells in 
    imaging-based spatial data (Transcriptomics and Proteomics). 
    It additionally implements several plots for the visualization of 
    imaging based polygons through the ggplot2 package.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: 
    R (>= 4.4.0),
    SpatialExperiment
Imports:
    DropletUtils,
    S4Vectors,
    SummarizedExperiment,
    arrow,
    data.table,
    dplyr,
    e1071,
    ggplot2,
    ggpubr,
    robustbase,
    scater,
    scuttle,
    sf,
    sfheaders,
    cowplot,
    glmnet,
    rhdf5,
    methods,
    rlang,
    SpatialExperimentIO
Suggests:
    knitr,
    rmarkdown,
    BiocStyle,
    testthat (>= 3.0.0),
    withr,
    viridis
biocViews: 
    Software, 
    Transcriptomics, 
    GeneExpression, 
    QualityControl, 
    Spatial, 
    SingleCell,
    DataImport,
    ImmunoOncology
RoxygenNote: 7.3.3
VignetteBuilder: knitr
BugReports: https://github.com/drighelli/SpaceTrooper/issues
URL: https://github.com/drighelli/SpaceTrooper
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/SpaceTrooper
git_branch: devel
git_last_commit: f30af78
git_last_commit_date: 2025-12-12
Repository: Bioconductor 3.23
