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SpaTopic
View on CRAN: Click
here
Download and install SpaTopic package within the R console
Install from CRAN:
install.packages("SpaTopic")
Install from Github:
library("remotes")
install_github("cran/SpaTopic") Install by package version:
library("remotes")
install_version("SpaTopic", "1.3.1") Attach the package and use:
library("SpaTopic")
Maintained by
Xiyu Peng
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2024-01-17
Latest Update: 2025-03-03
Description:
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/>.
How to cite:
Xiyu Peng (2024). SpaTopic: Topic Inference to Identify Tissue Architecture in Multiplexed Images. R package version 1.3.1, https://cran.r-project.org/web/packages/SpaTopic. Accessed 30 Oct. 2026.
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