Single-data: spatial_query

from SpatialQuery import spatial_query
sp = spatial_query(adata, dataset="my_dataset")

Motif Discovery

Method	Description
sp.find_fp_knn	Find frequent patterns using KNN neighborhoods
sp.find_fp_dist	Find frequent patterns using distance-based neighborhoods
sp.find_patterns_grid	Find patterns on a grid
sp.find_patterns_rand	Find patterns with random sampling
sp.motif_enrichment_knn	Motif enrichment analysis using KNN
sp.motif_enrichment_dist	Motif enrichment analysis using distance

Motif-associated Molecular Analysis

Method	Description
sp.de_genes	Differential expression analysis within motifs
sp.compute_gene_gene_correlation	Gene-gene covariation analysis
sp.compute_gene_gene_correlation_by_type	Gene-gene covariation analysis by cell type
sp.test_score_difference	Test covariation score differences

Plotting

Method	Description
sp.plot_fov	Plot field of view
sp.plot_motif_grid	Plot motifs on grid
sp.plot_motif_rand	Plot motifs with random sampling
sp.plot_motif_celltype	Plot motifs by cell type
sp.plot_all_center_motif	Plot all center motifs
sp.plot_fp_heatmap	Plot frequent pattern heatmap
sp.plot_motif_enrichment_heatmap	Plot motif enrichment heatmap
sp.plot_gene_pair_heatmap	Plot gene pair heatmap
sp.plot_gene_pair_spatial	Plot gene pair spatial expression