DESCRIPTION

Package: standR
Title: Spatial transcriptome analyses of Nanostring's DSP data in R
Version: 1.11.2
Authors@R: 
    c(person(given = "Ning",
             family = "Liu",
             role = c("aut", "cre"),
             email = "ning.liu@adelaide.edu.au",
             comment = c(ORCID = "0000-0002-9487-9305")),
      person(given = "Dharmesh D",
             family = "Bhuva",
             role = c("aut"),
             email = "bhuva.d@wehi.edu.au",
             comment = c(ORCID = "0000-0002-6398-9157")),
      person(given = "Ahmed",
             family = "Mohamed",
             role = c("aut"),
             email = "mohamed.a@wehi.edu.au"))
Description: standR is an user-friendly R package providing functions to assist conducting 
    good-practice analysis of Nanostring's GeoMX DSP data. All functions in the package are 
    built based on the SpatialExperiment object, allowing integration into various spatial
    transcriptomics-related packages from Bioconductor. standR allows data inspection, quality
    control, normalization, batch correction and evaluation with informative visualizations.
biocViews: Spatial, Transcriptomics, GeneExpression, DifferentialExpression, QualityControl, Normalization, ExperimentHubSoftware
License: MIT + file LICENSE
URL: https://github.com/DavisLaboratory/standR
BugReports: https://github.com/DavisLaboratory/standR/issues
Encoding: UTF-8
LazyData: false
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Imports:
    dplyr,
    SpatialExperiment (>= 1.5.2),
    SummarizedExperiment,
    SingleCellExperiment,
    edgeR,
    rlang,
    readr,
    tibble,
    ggplot2,
    tidyr,
    ruv,
    limma,
    patchwork,
    S4Vectors,
    Biobase,
    BiocGenerics,
    grDevices,
    stats,
    methods,
    ggalluvial,
    mclustcomp,
    RUVSeq
Suggests:
    knitr,
    ExperimentHub,
    rmarkdown,
    scater,
    uwot,
    ggpubr,
    ggrepel,
    cluster,
    testthat (>= 3.0.0)
Config/testthat/edition: 3
Depends: 
    R (>= 4.1)
VignetteBuilder: knitr