concordexR

Identify Spatial Homogeneous Regions with concordex

Bioconductor version: 3.23 · Package version: 1.12.0

Spatial homogeneous regions (SHRs) in tissues are domains that are homogenous with respect to cell type composition. We present a method for identifying SHRs using spatial transcriptomics data, and demonstrate that it is efficient and effective at finding SHRs for a wide variety of tissue types. concordex relies on analysis of k-nearest-neighbor (kNN) graphs. The tool is also useful for analysis of non-spatial transcriptomics data, and can elucidate the extent of concordance between partitions of cells derived from clustering algorithms, and transcriptomic similarity as represented in kNN graphs.

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("concordexR")