API for pathfindR
Enrichment Analysis Utilizing Active Subnetworks
| Global functions | |
|---|---|
| .find_components_named | Man page Source code |
| .find_subnetworks | Man page Source code |
| .ga_compare | Man page Source code |
| .ga_crossover_mutation | Man page Source code |
| .ga_make_individual | Man page Source code |
| .ga_pick | Man page Source code |
| .ga_score | Man page Source code |
| .ga_sort_desc | Man page Source code |
| .genetic_algorithm | Man page Source code |
| .greedy_search | Man page Source code |
| .make_subnetwork | Man page Source code |
| .parse_experiment | Man page Source code |
| .score_subnetwork | Man page Source code |
| .simulated_annealing | Man page Source code |
| .sort_subnetworks_desc | Man page Source code |
| UpSet_plot | Man page Source code |
| active_snw_enrichment_wrapper | Man page Source code |
| active_subnetwork_search | Man page Source code |
| annotate_term_genes | Man page Source code |
| build_network | Man page Source code |
| build_score_context | Man page Source code |
| cluster_enriched_terms | Man page Source code |
| cluster_graph_vis | Man page Source code |
| color_kegg_pathway | Man page Source code |
| combine_pathfindR_results | Man page Source code |
| combined_results_graph | Man page Source code |
| component_scores_sorted | Source code |
| create_HTML_report | Man page Source code |
| create_kappa_matrix | Man page Source code |
| create_term_gene_graph | Man page Source code |
| create_term_gene_plot | Man page Source code |
| enrichment | Man page Source code |
| enrichment_analyses | Man page Source code |
| enrichment_chart | Man page Source code |
| example_unfiltered_snws | Man page |
| fetch_gene_sets | Man page Source code |
| filter_active_subnetworks | Man page Source code |
| fuzzy_term_clustering | Man page Source code |
| get_active_subnetworks | Man page Source code |
| get_biogrid_pin | Man page Source code |
| get_gene_sets_list | Man page Source code |
| get_java_mc_calibration | Source code |
| get_java_zscores | Source code |
| get_kegg_gsets | Man page Source code |
| get_mgsigdb_gsets | Man page Source code |
| get_pin_file | Man page Source code |
| get_reactome_gsets | Man page Source code |
| gset_list_from_gmt | Man page Source code |
| hierarchical_term_clustering | Man page Source code |
| hyperg_test | Man page Source code |
| input_processing | Man page Source code |
| input_testing | Man page Source code |
| isColor | Man page Source code |
| java_neighbour_order | Source code |
| java_node_order | Source code |
| order_df_by_columnn | Man page Source code |
| pathfindR | Man page |
| pathfindR-package | Man page |
| plot_scores | Man page Source code |
| process_pin | Man page Source code |
| return_pin_path | Man page Source code |
| run_greedy_search | Source code |
| run_pathfindR | Man page Source code |
| run_simulated_annealing | Source code |
| safe_get_content | Man page Source code |
| score_terms | Man page Source code |
| single_iter_wrapper | Man page Source code |
| summarize_enrichment_results | Man page Source code |
| term_gene_heatmap | Man page Source code |
| visualize_KEGG_diagram | Man page Source code |
| visualize_active_subnetworks | Man page Source code |
| visualize_term_interactions | Man page Source code |
| visualize_terms | Man page Source code |
