Package: spatialGE
Title: Visualization and Analysis of Spatial Heterogeneity in
        Spatially-Resolved Gene Expression
Version: 1.2.2
Authors@R: c(
    person(given = "Oscar",
           family = "Ospina",
           role = c("aut", "cre"),
           email = "oscar.ospina@jhmi.edu",
           comment = c(ORCID = "0000-0001-5986-4207")),
    person(given = "Alex",
           family = "Soupir",
           role = c("aut"),
           email = "Alex.Soupir@moffitt.org",
           comment = c(ORCID = "0000-0003-1251-9179")),           
    person(given = "Brooke",
           family = "Fridley",
           role = c("aut"),
           email = "Brooke.Fridley@Moffitt.org",
           comment = c(ORCID = "0000-0001-7739-7956")),
    person("Satija Lab", 
    		role = "cph",
    		comment="Copyright holder of code fragments from Seurat function FindVariableFeatures")
           )
Description: Visualization and analysis of spatially resolved
        transcriptomics data. The 'spatialGE' R package provides
        methods for visualizing and analyzing spatially resolved
        transcriptomics data, such as 10X Visium, CosMx, or csv/tsv
        gene expression matrices. It includes tools for spatial
        interpolation, autocorrelation analysis, tissue domain
        detection, gene set enrichment, and differential expression
        analysis using spatial mixed models.
License: MIT + file LICENSE
Copyright: ins/COPYRIGHT
Encoding: UTF-8
RoxygenNote: 7.3.2
Imports: arrow, BiocParallel, concaveman, ComplexHeatmap, data.table,
        DelayedArray, DelayedMatrixStats, dynamicTreeCut, dplyr,
        EBImage, ggforce, ggplot2, ggpolypath, ggrepel, gstat, GSVA,
        hdf5r, jpeg, jsonlite, khroma (>= 1.6.0), magrittr, Matrix,
        MASS, methods, parallel, png, RColorBrewer, Rcpp (>= 1.0.7),
        readr, readxl, rlang, scales, sctransform, sfsmisc, sf, sp,
        spaMM, spdep, stats, stringr, tibble, tidyr, utils, uwot,
        wordspace
LinkingTo: Rcpp, RcppEigen, RcppProgress
Suggests: curl, geoR, ggpubr, httr, janitor, kableExtra, knitr,
        msigdbr, progress, rmarkdown, rpart, R.utils, scSpatialSIM,
        spatstat, SeuratObject, tidyverse, testthat (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
NeedsCompilation: yes
Packaged: 2026-07-04 20:47:58 UTC; root
Author: Oscar Ospina [aut, cre] (ORCID:
        <https://orcid.org/0000-0001-5986-4207>), Alex Soupir [aut]
        (ORCID: <https://orcid.org/0000-0003-1251-9179>), Brooke
        Fridley [aut] (ORCID: <https://orcid.org/0000-0001-7739-7956>),
        Satija Lab [cph] (Copyright holder of code fragments from
        Seurat function FindVariableFeatures)
Maintainer: Oscar Ospina <oscar.ospina@jhmi.edu>
Config/pak/sysreqs: libssl-dev zlib1g-dev
Repository: https://cran.r-universe.dev
Date/Publication: 2025-06-04 08:44:46 UTC
RemoteUrl: https://github.com/cran/spatialGE
RemoteRef: HEAD
RemoteSha: 4a24b5f215241756daf6be2b9ac1878094828744