Man pages for haneylab/geNet
Generating large network of co-occurring genes
| check_input_geNet | checking input df Function |
| check_input_visualization | check_input_visualization |
| contract_network | contract_network |
| export_geNet_result | Export geNet results |
| filter_id | function to filter the genes ID |
| final_score | function to format the final df of scores |
| generate_df_scores | generate_df_scores |
| generate_final_df | generate_final_df function to generate the final df of scores... |
| generate_freqs_genes | Calculate genes frequency |
| geNet | Execution geNet algorithm |
| gen_network_obj | generate igraph network |
| gen_visnetwork_data | gen_visnetwork_data |
| get_colors_based_on_gene_ID | get_colors_based_on_gene_ID |
| get_colors_based_on_size | get_colors_based_on_size |
| get_colors_based_on_strains | get new colors based on the strains |
| get_gene_ID_based_on_tooltip | get_gene_ID_based_on_tooltip |
| get_group_names_based_on_n_nodes | get the group names based on the number of nodes |
| get_group_names_based_on_tooltip | get group names based on annotation |
| get_groups_based_on_annotation | get groups based on the annotation |
| get_groups_based_on_clustering | get_groups_based_on_clustering |
| get_groups_based_on_gene_ID | get_groups_based_on_gene_ID |
| get_legend_df | get_legend_df |
| get_mappings | get_mappings |
| get_new_colors_based_on_groups | get_new_colors_based_on_groups |
| mod_color_layer | mod_color_layer |
| mod_group_layer | mod_group_layer |
| mod_group_names | mod_group_names |
| mod_size_layer | mod_size_layer |
| mod_tooltip_visnetwork | mod_tooltip_visnetwork |
| plot_visnetwork | plot_visnetwork |
| visualize_network | visualize_network |
