Index A | B | C | D | E | F | G | H | I | L | M | N | P | R | S | T | U | V | W A adata (sceleto.markers.graph._onestep.MarkerGraphRun property) aggregate() (sceleto.interaction.CellComm method) annotate() (sceleto.Annotator method) annotate_mask() (sceleto.Annotator method) Annotator (class in sceleto) B batch_expression (sceleto.markers._hierarchy.HierarchyRun attribute) batch_key (sceleto.markers._hierarchy.HierarchyRun attribute) (sceleto.markers.graph._onestep.MarkerGraphRun attribute) batch_mean_detail() (sceleto.markers.graph._onestep.MarkerGraphRun method) build_corr_matrix() (in module sceleto.network) build_feature_matrix() (in module sceleto.network) build_gene_network() (in module sceleto.network) C cellannotator() (in module sceleto.annotation) CellComm (class in sceleto.interaction) CellCommDB (class in sceleto.interaction) cofactor (sceleto.interaction.CellCommDB attribute) compare_interactions() (sceleto.interaction.MultiCellComm method) compare_markers() (sceleto.markers._hierarchy.HierarchyRun method) compare_markers_batch() (sceleto.markers._hierarchy.HierarchyRun method) complex (sceleto.interaction.CellCommDB attribute) compute_centrality() (in module sceleto.interaction) compute_communication() (sceleto.interaction.CellComm method) compute_communication_pathway() (sceleto.interaction.CellComm method) compute_corr() (in module sceleto.network) compute_net_similarity() (in module sceleto.interaction) (sceleto.interaction.CellComm method) compute_region_distance() (in module sceleto.interaction) contexts (sceleto.markers._hierarchy.HierarchyRun attribute) contribution() (sceleto.interaction.CellComm method) corr_pangea() (in module sceleto.network) count (sceleto.interaction.CellComm property) ctx (sceleto.markers.graph._onestep.MarkerGraphRun attribute) D diff_interaction() (sceleto.interaction.MultiCellComm method) dotplot() (in module sceleto) draw_graph() (in module sceleto.network) E edge_delta (sceleto.markers.graph._onestep.MarkerGraphRun attribute) edge_fc (sceleto.markers.graph._onestep.MarkerGraphRun attribute) edge_gene_df (sceleto.markers.graph._onestep.MarkerGraphRun attribute) edge_metric (sceleto.markers.graph._onestep.MarkerGraphRun attribute) F filter() (sceleto.markers.GeneFilter method) filter_communication() (sceleto.interaction.CellComm method) find_markers_groups() (sceleto.markers._simple.MarkersSimple method) find_markers_negative() (sceleto.markers._simple.MarkersSimple method) from_db() (sceleto.interaction.GeneMapper class method) full_gene_lists (sceleto.markers._hierarchy.HierarchyRun attribute) G G (sceleto.markers.graph._onestep.MarkerGraphRun attribute) gene_edge_fc (sceleto.markers.graph._onestep.MarkerGraphRun attribute) gene_to_edges (sceleto.markers.graph._onestep.MarkerGraphRun attribute) GeneFilter (class in sceleto.markers) geneinfo (sceleto.interaction.CellCommDB attribute) GeneMapper (class in sceleto.interaction) generate_gene_network() (in module sceleto.network) generate_training_X() (in module sceleto.annotation) get_common_var_raw() (in module sceleto.annotation) get_grid() (in module sceleto.network) groupby (sceleto.markers.graph._onestep.MarkerGraphRun property) H hierarchy() (in module sceleto.markers) HierarchyRun (class in sceleto.markers._hierarchy) I icls_full_dict (sceleto.markers._hierarchy.HierarchyRun attribute) icls_path_df (sceleto.markers._hierarchy.HierarchyRun attribute) identify_communication_patterns() (in module sceleto.interaction) (sceleto.interaction.CellComm method) identify_overexpressed() (sceleto.interaction.CellComm method) impute_anno() (in module sceleto.network) impute_neighbor() (in module sceleto.network) interaction (sceleto.interaction.CellCommDB attribute) interactive_viewer() (sceleto.markers._hierarchy.HierarchyRun method) is_complex() (sceleto.interaction.CellCommDB method) is_computed (sceleto.interaction.CellComm property) L labels (sceleto.markers.graph._onestep.MarkerGraphRun attribute) levels (sceleto.markers._hierarchy.HierarchyRun attribute) list_cell_types() (in module sceleto.network) list_cellcommdb() (in module sceleto.interaction) load_cellcommdb() (in module sceleto.interaction) load_corr_db() (in module sceleto.network) load_ppi() (in module sceleto.interaction) logistic_model() (in module sceleto.annotation) M map() (sceleto.interaction.GeneMapper method) mapping (sceleto.interaction.MappingResult attribute) MappingResult (class in sceleto.interaction) marker() (in module sceleto.markers) marker_rank_df (sceleto.markers._hierarchy.HierarchyRun attribute) MarkerGraphRun (class in sceleto.markers.graph._onestep) markers (sceleto.markers._simple.MarkersSimple property) (sceleto.markers.graph._onestep.MarkerGraphRun property) markers_scored (sceleto.markers._simple.MarkersSimple property) MarkersSimple (class in sceleto.markers._simple) matched_alias (sceleto.interaction.MappingResult attribute) matched_direct (sceleto.interaction.MappingResult attribute) metaannotator() (in module sceleto.annotation) MultiCellComm (class in sceleto.interaction) N n_matched (sceleto.interaction.MappingResult property) net_clustering() (in module sceleto.interaction) (sceleto.interaction.CellComm method) net_embedding() (in module sceleto.interaction) (sceleto.interaction.CellComm method) network() (in module sceleto.network) network_graph() (in module sceleto.interaction) new_exp_matrix() (in module sceleto.network) note_df (sceleto.markers.graph._onestep.MarkerGraphRun attribute) P params (sceleto.markers._hierarchy.HierarchyRun attribute) pathways (sceleto.interaction.CellComm property) (sceleto.interaction.CellCommDB property) plot_aggregate() (in module sceleto.interaction) plot_bubble() (in module sceleto.interaction) plot_chord() (in module sceleto.interaction) plot_chord_gene() (in module sceleto.interaction) plot_clustermap() (in module sceleto.network) plot_communication_patterns() (in module sceleto.interaction) plot_communication_patterns_dot() (in module sceleto.interaction) plot_communication_patterns_river() (in module sceleto.interaction) plot_contribution() (in module sceleto.interaction) plot_fc_threshold() (sceleto.markers.graph._onestep.MarkerGraphRun method) plot_gene_edges_fc() (sceleto.markers.graph._onestep.MarkerGraphRun method) plot_gene_levels_with_edges() (sceleto.markers.graph._onestep.MarkerGraphRun method) plot_heatmap() (in module sceleto.interaction) plot_highlight_edges() (sceleto.markers.graph._onestep.MarkerGraphRun method) plot_net_embedding() (in module sceleto.interaction) plot_net_embedding_zoom() (in module sceleto.interaction) plot_network() (in module sceleto.network) plot_network_circle() (in module sceleto.interaction) plot_rank_net() (in module sceleto.interaction) plot_roc() (in module sceleto.annotation) plot_signaling_role_heatmap() (in module sceleto.interaction) plot_signaling_role_network() (in module sceleto.interaction) plot_signaling_role_scatter() (in module sceleto.interaction) pos (sceleto.markers.graph._onestep.MarkerGraphRun attribute) predict_high() (in module sceleto.annotation) prob (sceleto.interaction.CellComm property) pval (sceleto.interaction.CellComm property) R rank_net() (sceleto.interaction.CellComm method) (sceleto.interaction.MultiCellComm method) read_process() (in module sceleto) remove_geneset() (in module sceleto) rename_frame() (sceleto.interaction.GeneMapper method) resolve() (sceleto.interaction.GeneMapper method) resolve_cofactor() (sceleto.interaction.CellCommDB method) resolve_genes() (sceleto.interaction.CellCommDB method) S sc_process() (in module sceleto) select_k() (in module sceleto.interaction) (sceleto.interaction.CellComm method) select_top_genes() (in module sceleto.network) show_marker() (sceleto.markers._simple.MarkersSimple method) signaling_genes() (sceleto.interaction.CellCommDB method) signaling_role() (in module sceleto.interaction) signaling_role_pathway() (in module sceleto.interaction) (sceleto.interaction.CellComm method) simple() (in module sceleto.markers) spatial_probability_factor() (in module sceleto.interaction) species (sceleto.interaction.CellCommDB attribute) specific_ranking_df (sceleto.markers.graph._onestep.MarkerGraphRun attribute) stats (sceleto.markers._simple.MarkersSimple property) subset() (sceleto.interaction.CellCommDB method) subset_communication() (sceleto.interaction.CellComm method) suggested_thres_fc (sceleto.markers.graph._onestep.MarkerGraphRun attribute) summary() (sceleto.Annotator method) (sceleto.interaction.MappingResult method) sweep_df (sceleto.markers.graph._onestep.MarkerGraphRun attribute) sweep_fc() (in module sceleto.markers) T to_uns() (sceleto.interaction.CellComm method) transfer() (in module sceleto.annotation) U unmatched (sceleto.interaction.MappingResult attribute) update_label() (in module sceleto.annotation) us() (in module sceleto) V viz (sceleto.markers.graph._onestep.MarkerGraphRun attribute) W weight (sceleto.interaction.CellComm property)