A novel spatial topic model to integrate both cell type and spatial information to identify the complex spatial tissue architecture on multiplexed tissue images without human intervention. The Package implements a collapsed Gibbs sampling algorithm for inference. 'SpaTopic' is scalable to large-scale image datasets without extracting neighborhood information for every single cell. For more details on the methodology, see <https://xiyupeng.github.io/SpaTopic/>.
Version: 1.2.0 Depends: R (≥ 3.5.0) Imports: Rcpp (≥ 0.12.0), RANN (≥ 2.6.0), sf (≥ 1.0-12), methods (≥ 3.4), foreach (≥ 1.5.0), iterators (≥ 1.0) LinkingTo: Rcpp, RcppArmadillo, RcppProgress Suggests: knitr, rmarkdown, SeuratObject (≥ 4.9.9.9086), doParallel (≥ 1.0) Published: 2025-03-03 DOI: 10.32614/CRAN.package.SpaTopic Author: Xiyu Peng [aut, cre] Maintainer: Xiyu Peng <pansypeng124 at gmail.com> BugReports: https://github.com/xiyupeng/SpaTopic/issues License: GPL (≥ 3) URL: https://github.com/xiyupeng/SpaTopic NeedsCompilation: yes Materials: README NEWS CRAN checks: SpaTopic results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=SpaTopic to link to this page.
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