Other packages > Find by keyword >

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", "1.2.0")



Attach the package and use:
library("SpaTopic")
Maintained by
Xiyu Peng
[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 1.2.0, https://cran.r-project.org/web/packages/SpaTopic. Accessed 05 Jun. 2026.
Previous versions and publish date:
1.0.1 (2024-01-17 19:42), 1.1.0 (2024-04-23 01:50), 1.2.0 (2025-03-03 18:00)
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
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

envirem  
Generation of ENVIREM Variables
Generation of bioclimatic rasters that are complementary to the typical 19 bioclim variables. ...
Download / Learn more Package Citations See dependency  
quickcode  
Quick and Essential 'R' Tricks for Better Scripts
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency  
ibb  
R Wrapper for Istanbul Municipality Open Data Portal
Call wrappers for Istanbul Metropolitan Municipality's Open Data Portal (Turkish: Istanbul B ...
Download / Learn more Package Citations See dependency  
crossurr  
Cross-Fitting for Doubly Robust Evaluation of High-Dimensional Surrogate Markers
Doubly robust methods for evaluating surrogate markers as outlined in: Agniel D, Hejblum BP, Thiebau ...
Download / Learn more Package Citations See dependency  
msm  
Multi-State Markov and Hidden Markov Models in Continuous Time
Functions for fitting continuous-time Markov and hidden Markov multi-state models to longitudinal d ...
Download / Learn more Package Citations See dependency  

27,268

R Packages

233,548

Dependencies

72,590

Author Associations

27,205

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA