Package: SpNeigh
Title: Spatial Neighborhood Modeling and Differential Expression
        Analysis for Transcriptomics
Version: 1.0.0
Authors@R: 
    person(given = "Jinming", 
           family = "Cheng", 
           email="jinming.cheng@outlook.com", 
           role = c("aut", "cre"),
           comment = c(ORCID = "0000-0003-3806-4694"))
Description: SpNeigh provides methods for neighborhood-aware analysis of spatial 
    transcriptomics data. It supports boundary detection, 
    spatial weighting (centroid- and boundary-based), 
    spatially informed differential expression using spline-based models, 
    and spatial enrichment analysis via the Spatial Enrichment Index (SEI). 
    Designed for compatibility with Seurat objects, SpatialExperiment objects
    and spatial data frames, SpNeigh enables interpretable, 
    publication-ready analysis of spatial gene expression patterns.
License: GPL (>= 3)
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Imports: concaveman, dbscan, dplyr, FNN, ggplot2, limma, magrittr,
        Matrix, methods, patchwork, purrr, rlang, scales, Seurat, sf,
        SingleCellExperiment, SpatialExperiment, splines, stringr,
        SummarizedExperiment, tibble, tidyr
Suggests: BiocStyle, knitr, rmarkdown, SeuratObject, testthat (>=
        3.0.0)
biocViews: Spatial, SingleCell, GeneExpression, DifferentialExpression,
        Transcriptomics, Software
URL: https://github.com/jinming-cheng/SpNeigh
BugReports: https://github.com/jinming-cheng/SpNeigh/issues
Depends: R (>= 4.4.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/SpNeigh
git_branch: RELEASE_3_23
git_last_commit: 59639e6
git_last_commit_date: 2026-04-28
Repository: Bioconductor 3.23
Date/Publication: 2026-04-28
NeedsCompilation: no
Packaged: 2026-04-28 23:38:55 UTC; biocbuild
Author: Jinming Cheng [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-3806-4694>)
Maintainer: Jinming Cheng <jinming.cheng@outlook.com>
Built: R 4.6.0; ; 2026-04-29 05:02:33 UTC; unix
