Function reference
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LRdb_human - Ligand-receptor database (human)
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LRdb_mouse - Ligand-receptor database (mouse)
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add_annots_to_nodes() - Add annotations to nodes
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add_node_annot_to_edges() - Add node annotations to edges
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amend_ccc_tbl_with_cell_annots() - Amend CCC table with annotations for source and destination cells
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calc_spot_dist() - Calculate distance between spots
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calculate_LR_percent_rank() - Calculate (combined) percent rank of n and LRscore
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ccc_graph_diff() - Subtract a spatial CCC graph (ccog2) from another (ccog1)
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ccc_graph_intersect() - Create a new spatial CCC graph with common edges
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ccc_graph_union() - Combine two CCC graphs
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compute_spatial_ccc_graph() - Compute a spatial CCC graph
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compute_spatial_ccc_graph_list() - Compute spatial CCC graphs over a list of LR pairs
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compute_spatial_ccc_tbl() - Compute spatial ligand-receptor interactions
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dist_cell_overlap_ccc_tbl() - Compute cell overlap distance
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extract_spatial_ccc_graph_edges() - Convert spatial CCC graphs to spatial CCC table
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flatten_ccc_graph_list() - Flatten multiple CCC graphs into aggregate one
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get_LRdb() - Return LRdb table
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get_spatial_data() - Get spatial coordinates
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lf_cell_overlap_ccc_tbl() - Compute cell overlap distance
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lf_to_dist() - Convert distance in long format to matrix
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plot_spatial_ccc_graph() - Plot spatial CCC graph
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plot_spatial_feature() - Plot spatial feature
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set_ccc_tbl_default_cluster() - Set default cluster in CCC table
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spatialCCC_example() - List example files for spatialCCC package
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split_ccc_tbl_LR() - Split LR into L and R
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summarise_ccc_by_cell() - Summarize CCC table by (cell, LR)
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summarize_ccc_graph_metrics() - Summarize spatial CCC graph list to graph/group metrics table
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tag_cells_in_ccc_graph() - Tag nodes if included in COIs
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tidy_up_ccc_graph() - Tidy up CCC graph by removing isolated nodes
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to_LR_summary_tbl() - Summarize spatial CCC graph for LR
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to_spatial_ccc_graph() - Convert CCC table to CCC graph