Package: concordexR 1.7.0

concordexR: Identify Spatial Homogeneous Regions with concordex

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.

Authors:Kayla Jackson [aut, cre], A. Sina Booeshaghi [aut], Angel Galvez-Merchan [aut], Lambda Moses [aut], Alexandra Kim [ctb], Laura Luebbert [ctb], Lior Pachter [aut, rev, ths]