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SpaTopic  

Topic Inference to Identify Tissue Architecture in Multiplexed Images
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", "1.1.0")



Attach the package and use:
library("SpaTopic")
Maintained by
Xiyu Peng
[Scholar Profile | Author Map]
First Published: 2024-01-17
Latest Update: 2024-01-17
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 1.1.0, https://cran.r-project.org/web/packages/SpaTopic. Accessed 21 Feb. 2025.
Previous versions and publish date:
1.0.1 (2024-01-17 19:42)
Other packages that cited SpaTopic R package
View SpaTopic citation profile
Other R packages that SpaTopic depends, imports, suggests or enhances
Complete documentation for SpaTopic
Functions, R codes and Examples using the SpaTopic R package
Full SpaTopic package functions and examples
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