Package: SpaTopic 1.1.0.9900

SpaTopic: Topic Inference to Identify Tissue Architecture in Multiplexed Images

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/>.

Authors:Xiyu Peng [aut, cre]

SpaTopic_1.1.0.9900.tar.gz
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SpaTopic.pdf |SpaTopic.html✨
SpaTopic/json (API)
NEWS

Peer review:

Bug tracker:https://github.com/xiyupeng/spatopic/issues

On CRAN:

3 exports 2 stars 1.79 score 19 dependencies 7 scripts 866 downloads

Last updated 5 days agofrom:dd8368dab1. Checks:OK: 9. Indexed: yes.

Exports:Seurat5obj_to_SpaTopicSpaTopic_inferencestratified_sampling_sf

Dependencies:classclassIntcodetoolsDBIe1071foreachiteratorsKernSmoothmagrittrMASSproxyRANNRcppRcppArmadilloRcppProgresss2sfunitswk