stIHC: Spatial transcriptomics iterative hierarchical clustering

Overview

The stIHC package implements the spatial transcriptomics iterative hierarchical clustering method from the paper Higgins C, Li JJ, Carey M. Spatial transcriptomics iterative hierarchical clustering (stIHC): a novel method for identifying spatial gene co-expression modules. Quantitative Biology. 2025;e70011. https://doi.org/10.1002/qub2.70011

Example

An example demonstrating how to use stIHC, along with the data required to reproduce simulations from Section 3.2 in our paper, is provided.

library(stIHC)

rds_path <- system.file("extdata", "spatial_data.rds", package = "stIHC")
example_data <- readRDS(rds_path)

stihc = stIHC(example_data) #Run stIHC

table(stihc$label)
#> 
#>  1  2  3  4 
#>  6  2 16 25