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.
Version: 1.2.2 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) Published: 2025-06-04 DOI: 10.32614/CRAN.package.spatialGE Author: Oscar Ospina [aut, cre], Alex Soupir [aut], Brooke Fridley [aut], Satija Lab [cph] (Copyright holder of code fragments from Seurat function FindVariableFeatures) Maintainer: Oscar Ospina <oscar.ospina at jhmi.edu> License: MIT + file LICENSE Copyright: ins/COPYRIGHT NeedsCompilation: yes Materials: README NEWS CRAN checks: spatialGE resultsRetroSearch is an open source project built by @garambo | Open a GitHub Issue
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