.apply_sme_filters	dot-apply_sme_filters
.calc_IM_scores	dot-calc_IM_scores
.calc_threshold	dot-calc_threshold
.directed_SpaceMarkers	dot-directed_SpaceMarkers
.directed_SpaceMarkers_sme	dot-directed_SpaceMarkers_sme
.find_genes_of_interest	dot-find_genes_of_interest
.get_BTME_features	dot-get_BTME_features
.get_cogaps_features	dot-get_cogaps_features
.get_csv_features	dot-get_csv_features
.get_seurat_features	dot-get_seurat_features
.get_spe_features	dot-get_spe_features
.infer_method	dot-infer_method
.pick_image	dot-pick_image
.read_format	dot-read_format
.row_t_test	dot-row_t_test
.undirected_SpaceMarkers	dot-undirected_SpaceMarkers
.undirected_SpaceMarkers_sme	dot-undirected_SpaceMarkers_sme
.wrap_directed_result	dot-wrap_directed_result
.wrap_undirected_result	dot-wrap_undirected_result
add_features	add_features
analysis_type	analysis_type
analysis_type,SpaceMarkersExperiment-method	analysis_type
analysis_type<-	analysis_type
analysis_type<-,SpaceMarkersExperiment-method	analysis_type
as-SingleCellExperiment-SpaceMarkersExperiment	as-SingleCellExperiment-SpaceMarkersExperiment
as-SpatialExperiment-SpaceMarkersExperiment	as-SpatialExperiment-SpaceMarkersExperiment
assay	reexports
assays	reexports
calculate_gene_scores_directed	calculate_gene_scores_directed
calculate_gene_scores_directed,ANY-method	calculate_gene_scores_directed
calculate_gene_scores_directed,SpaceMarkersExperiment-method	calculate_gene_scores_directed
calculate_gene_set_score	calculate_gene_set_score
calculate_gene_set_score,ANY-method	calculate_gene_set_score
calculate_gene_set_score,SpaceMarkersExperiment-method	calculate_gene_set_score
calculate_gene_set_specificity	calculate_gene_set_specificity
calculate_gene_set_specificity,ANY-method	calculate_gene_set_specificity
calculate_gene_set_specificity,SpaceMarkersExperiment-method	calculate_gene_set_specificity
calculate_influence	calculate_influence
calculate_influence,data.frame-method	calculate_influence
calculate_influence,SpaceMarkersExperiment-method	calculate_influence
calculate_lr_scores	calculate_lr_scores
calculate_lr_scores,ANY-method	calculate_lr_scores
calculate_lr_scores,SpaceMarkersExperiment-method	calculate_lr_scores
calculate_overlap_directed	calculate_overlap_directed
calculate_overlap_directed,data.frame-method	calculate_overlap_directed
calculate_overlap_directed,SpaceMarkersExperiment-method	calculate_overlap_directed
calculate_overlap_undirected	calculate_overlap_undirected
calculate_overlap_undirected,data.frame-method	calculate_overlap_undirected
calculate_overlap_undirected,SpaceMarkersExperiment-method	calculate_overlap_undirected
calculate_thresholds	calculate_thresholds
colData	reexports
create_lr_dataframe	create_lr_dataframe
curated_genes	curated_genes
directed_scores	directed_scores
directed_scores,SpaceMarkersExperiment-method	directed_scores
directed_scores<-	directed_scores
directed_scores<-,SpaceMarkersExperiment-method	directed_scores
find_all_hotspots	find_all_hotspots
find_all_hotspots,data.frame-method	find_all_hotspots
find_all_hotspots,SpaceMarkersExperiment-method	find_all_hotspots
find_hotspots_gmm	find_hotspots_gmm
find_hotspots_gmm,data.frame-method	find_hotspots_gmm
find_hotspots_gmm,SpaceMarkersExperiment-method	find_hotspots_gmm
find_pattern_hotspots	find_pattern_hotspots
get_im_scores	get_im_scores
get_im_scores,list-method	get_im_scores
get_im_scores,SpaceMarkersExperiment-method	get_im_scores
get_interacting_genes	get_interacting_genes
get_pairwise_interacting_genes	get_pairwise_interacting_genes
get_pairwise_interacting_genes,ANY-method	get_pairwise_interacting_genes
get_pairwise_interacting_genes,SpaceMarkersExperiment-method	get_pairwise_interacting_genes
get_spatial_features	get_spatial_features
get_spatial_parameters	get_spatial_parameters
get_spatial_params_morans_i	get_spatial_params_morans_i
hotspots	hotspots
hotspots,SpaceMarkersExperiment-method	hotspots
hotspots<-	hotspots
hotspots<-,SpaceMarkersExperiment-method	hotspots
imgRaster	reexports
influence_map	influence_map
influence_map,SpaceMarkersExperiment-method	influence_map
influence_map<-	influence_map
influence_map<-,SpaceMarkersExperiment-method	influence_map
interactions	interactions
interactions,SpaceMarkersExperiment-method	interactions
interactions<-	interactions
interactions<-,SpaceMarkersExperiment-method	interactions
load10X	load10X
load10XCoords	load10XCoords
load10XExpr	load10XExpr
load_anndata	load_anndata
lrdf	lrdf
lr_scores	lr_scores
lr_scores,SpaceMarkersExperiment-method	lr_scores
lr_scores<-	lr_scores
lr_scores<-,SpaceMarkersExperiment-method	lr_scores
optParams	optParams
overlap_map	overlap_map
overlap_scores	overlap_scores
overlap_scores,SpaceMarkersExperiment-method	overlap_scores
overlap_scores<-	overlap_scores
overlap_scores<-,SpaceMarkersExperiment-method	overlap_scores
params	params
params,SpaceMarkersExperiment-method	params
plot_cell_interaction_circos	plot_cell_interaction_circos
plot_im_scores	plot_im_scores
plot_overlap_scores	plot_overlap_scores
plot_source_to_target_circos	plot_source_to_target_circos
plot_spatial	plot_spatial
plot_spatial_data_over_image	plot_spatial_data_over_image
plot_target_from_sources_circos	plot_target_from_sources_circos
reexports	reexports
rowData	reexports
save_anndata	save_anndata
show,SpaceMarkersExperiment-method	SpaceMarkersExperiment-class
SpaceMarkers	SpaceMarkers
SpaceMarkersExperiment	SpaceMarkersExperiment
SpaceMarkersExperiment-accessors	spatial_patterns
SpaceMarkersExperiment-class	SpaceMarkersExperiment-class
SpaceMarkersExperiment-imports	SpaceMarkersExperiment-imports
spatialCoords	reexports
spatialCoords<-	reexports
spatial_params	spatial_params
spatial_params,SpaceMarkersExperiment-method	spatial_params
spatial_params<-	spatial_params
spatial_params<-,SpaceMarkersExperiment-method	spatial_params
spatial_patterns	spatial_patterns
spatial_patterns,SpaceMarkersExperiment-method	spatial_patterns
spatial_patterns<-	spatial_patterns
spatial_patterns<-,SpaceMarkersExperiment-method	spatial_patterns
undirected_scores	undirected_scores
undirected_scores,SpaceMarkersExperiment-method	undirected_scores
undirected_scores<-	undirected_scores
undirected_scores<-,SpaceMarkersExperiment-method	undirected_scores
