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: 2025-06-03 14:47:52 UTC; oospina1
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>
Repository: CRAN
Date/Publication: 2025-06-04 07:50:02 UTC
Built: R 4.5.3; x86_64-w64-mingw32; 2026-05-23 19:39:50 UTC; windows
Archs: x64
