COSIE.linkage_construction

Functions

compute_linkages	Construct pairwise linkage triplets across specified tissue sections and modalities using symmetric nearest neighbor matching.
compute_linkages_per_subgraph	Compute triplet linkages between two spatial subgraphs, each from a different section.
load_protein_gene_mapping	Load relationships between proteins and their associated genes.
perform_strong_linkage_knn	Construct triplet pairs between two sections of the same modality using symmetric KNN-based linkage.
perform_weak_linkage_knn	Construct weak linkage triplet pairs between two datasets of different but biologically related modalities.
preprocess_data_for_subgraphs	Split each section into spatial subgraphs and compute cross-section triplet linkages at the subgraph level.
split_into_subgraphs	Split a feature tensor and its corresponding spatial coordinates into n_x × n_y rectangular subregions.
split_raw_data	Divide spatial omics data from each section into spatially partitioned subgraphs.