Package: scider
Type: Package
Title: Spatial cell-type inter-correlation by density in R
Version: 1.5.0
Authors@R: 
    c(person(given = "Ning", 
            family = "Liu",
            role = c("aut"),
            email = "liu.n@wehi.edu.au",
            comment = c(ORCID = "0000-0002-9487-9305")),
      person(given = "Mengbo",
             family = "Li",
             role = c("aut"),
             email = "li.me@wehi.edu.au",
             comment = c(ORCID = "0000-0002-9666-5810")),
      person(given = "Yunshun",
             family = "Chen",
             role = c("aut", "cre"),
             email = "yuchen@wehi.edu.au",
             comment = c(ORCID = "0000-0003-4911-5653")))
Description: scider is a user-friendly R package providing functions 
    to model the global density of cells in a slide of spatial 
    transcriptomics data. All functions in the package are built 
    based on the SpatialExperiment object, allowing integration into 
    various spatial transcriptomics-related packages from Bioconductor. 
    After modelling density, the package allows for serveral 
    downstream analysis, including colocalization analysis, 
    boundary detection analysis and differential density analysis.
biocViews: Spatial, Transcriptomics
License: GPL-3 + file LICENSE
URL: https://github.com/ChenLaboratory/scider, https://chenlaboratory.github.io/scider/
BugReports: https://github.com/ChenLaboratory/scider/issues
Encoding: UTF-8
LazyData: false
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Imports:
    SpatialExperiment,
    SummarizedExperiment,
    spatstat.geom,
    spatstat.explore,
    sf,
    lwgeom, 
    ggplot2,
    stats,
    pheatmap,
    plotly,
    shiny,
    igraph,
    janitor,
    knitr,
    methods,
    utils,
    rlang,
    isoband,
    S4Vectors,
    grDevices
Suggests:
    edgeR,
    testthat (>= 3.0.0)
Config/testthat/edition: 3
Depends: 
    R (>= 4.3)
VignetteBuilder: knitr