API for martahidalgo/hipathia
HiPathia: High-throughput Pathway Analysis
| Global functions | |
|---|---|
| DAcomp | Man page Source code |
| DAoverview | Man page Source code |
| DAreport | Man page Source code |
| DAsummary | Man page Source code |
| DAtop | Man page Source code |
| add_edge_colors | Source code |
| add_funs_to_pg | Source code |
| add_funs_to_pgs | Source code |
| add_missing_genes | Source code |
| add_param | Source code |
| all_needed_genes | Source code Source code |
| all_path_values | Source code |
| annotate_paths | Man page Source code |
| anova_test_fun | Source code |
| brca | Man page |
| brca_data | Man page |
| brca_design | Man page |
| calculate_wilcox_test | Source code |
| clip_names | Source code |
| comp | Man page |
| compute_node_signal | Source code |
| cor_data_frame | Source code |
| cor_test_fun | Source code |
| create_effector_subgraphs | Source code |
| create_html_index | Source code |
| create_metaginfo_object | Source code |
| create_node_and_edge_attributes | Source code |
| create_path_info | Source code |
| create_pathways_folder | Source code |
| create_report | Man page Source code |
| create_report_folders | Source code |
| create_subgraphs | Source code |
| define_colors | Man page Source code |
| do_anova_test | Source code |
| do_cor | Source code |
| do_limma | Source code |
| do_pca | Man page Source code |
| do_wilcoxon | Man page Source code |
| enrichment | Source code |
| exp_data | Man page |
| filter_pathways | Source code |
| filter_pseudo_mgi | Source code |
| find_all_paths_from | Source code |
| find_possible_paths | Source code |
| get_altered_nodes | Source code |
| get_best_gene_functions | Source code |
| get_best_node_functions | Source code |
| get_colors_from_pval | Source code |
| get_edge_vectorial_force | Source code |
| get_edges_df | Source code |
| get_edges_status | Source code |
| get_effnode_id | Source code |
| get_effpath_id | Source code |
| get_entrez_function | Source code |
| get_genes_lists | Source code |
| get_go_names | Man page Source code |
| get_highest_sig_ancestor | Man page Source code |
| get_hpannot_version | Source code |
| get_ininode_id | Source code |
| get_last_node | Source code |
| get_measured_nodes | Source code |
| get_node_names | Man page Source code |
| get_node_type | Source code |
| get_node_vecForce | Source code |
| get_nodes_data | Man page Source code |
| get_path_names | Man page Source code |
| get_path_nodes | Source code |
| get_paths_data | Man page Source code |
| get_pathway_functions | Man page Source code |
| get_pathways_annotations | Man page Source code |
| get_pathways_list | Man page Source code |
| get_pathways_summary | Man page Source code |
| get_pseudo_metaginfo | Source code |
| go_vals | Man page |
| heatmap_plot | Man page Source code |
| hhead | Man page Source code |
| hipathia | Man page Source code |
| igraphs_upgrade | Man page Source code |
| is_accepted_database | Source code |
| is_accepted_grouping | Source code |
| is_accepted_species | Man page Source code |
| is_decomposed | Source code |
| is_decomposed_matrix | Source code |
| load_annofuns | Man page Source code |
| load_annots | Man page Source code |
| load_entrez_hgnc | Man page Source code |
| load_gobp_frame | Man page Source code |
| load_gobp_net | Man page Source code |
| load_graphs | Source code |
| load_mgi | Man page Source code |
| load_pathways | Man page Source code |
| load_pseudo_mgi | Man page Source code |
| load_xref | Man page Source code |
| mgi_from_sif | Man page Source code |
| multiple_pca_plot | Man page Source code |
| node_color | Man page Source code |
| node_color_per_de | Man page Source code |
| nodes_values_from_genes | Source code |
| normalize_data | Man page Source code |
| normalize_matrix | Source code |
| normalize_paths | Man page Source code |
| nsig_plot | Source code |
| path_vals | Man page |
| path_value | Source code |
| paths_to_go_ancestor | Man page Source code |
| pathway_comparison_plot | Man page Source code |
| pathway_summary | Source code |
| pca_plot | Man page Source code |
| plotVG | Man page Source code |
| plotVisGraphDE | Source code |
| plot_pathigraph | Source code |
| plot_pca_variance | Source code |
| prepare_DAedges | Source code |
| prepare_DAnodes | Source code |
| prepare_edges | Source code |
| prepare_nodes | Source code |
| prettyifelse | Source code |
| quantify_funs | Source code |
| quantify_terms | Man page Source code |
| refine_layout | Source code |
| results | Man page |
| save_results | Man page Source code |
| sif_to_pathigraph | Source code |
| summarize_atts | Source code |
| summarize_probabilities | Source code |
| summary_plot | Source code |
| test_matrix | Source code |
| test_pathways_object | Source code |
| test_tolerance | Source code |
| top_pathways | Man page Source code |
| translate_data | Man page Source code |
| translate_ids | Source code |
| translate_matrix | Man page Source code |
| visualize_report | Man page Source code |
| wilcox_data_frame | Source code |
| wilcox_test_fun | Source code |
| wilcoxsign_test_fun | Source code |
| write_attributes | Source code |
