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: 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 1.2.0, https://cran.r-project.org/web/packages/SpaTopic. Accessed 07 Jun. 2025.
Previous versions and publish date:
1.0.1 (2024-01-17 19:42), 1.1.0 (2024-04-23 01:50)
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

pvclust  
Hierarchical Clustering with P-Values via Multiscale Bootstrap Resampling
An implementation of multiscale bootstrap resampling for assessing the uncertainty in hierarchical ...
Download / Learn more Package Citations See dependency  
Anthropometry  
Statistical Methods for Anthropometric Data
Statistical methodologies especially developed to analyze anthropometric data. These methods are aim ...
Download / Learn more Package Citations See dependency  
r2resize  
In-Text Resize for Images, Tables and Fancy Resize Containers in 'shiny', 'rmarkdown' and 'quarto' Documents
Automatic resizing toolbar for containers, images and tables. Various resizable or expandable contai ...
Download / Learn more Package Citations See dependency  
synlik  
Synthetic Likelihood Methods for Intractable Likelihoods
Framework to perform synthetic likelihood inference for models where the likelihood function is unav ...
Download / Learn more Package Citations See dependency  
torchvisionlib  
Additional Operators for Image Models
Implements additional operators for computer vision models, including operators necessary for image ...
Download / Learn more Package Citations See dependency  
FactoInvestigate  
Automatic Description of Factorial Analysis
Brings a set of tools to help and automatically realise the description of principal component analy ...
Download / Learn more Package Citations See dependency  

24,407

R Packages

207,311

Dependencies

65,910

Author Associations

24,331

Publication Badges

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