Man pages for ddeweerd/MODifieRDev
MODifieRDev
| build_clique_db | Create a sqlite database containing all maximal cliques from... |
| clique_sum_exact | Clique Sum Exact |
| clique_sum_permutation | Clique Sum |
| correlation_adjust_cutoff | correlation_adjust_cutoff |
| correlation_clique | Clique_correlation |
| correlation_set_module_size | correlation_set_module_size |
| count_matrix | Count matrix |
| create_custom_microarray_input_object | Create a generic microarray based input object |
| create_custom_rna_input_object | Create a generic RNA-seq based input object |
| create_input_microarray | Creates an input object for downstream analysis |
| create_input_rnaseq | Creates an RNA-seq input object for downstream analysis |
| create_module_set | Consensus module |
| diamond | DIAMOnD |
| diamond_add_seed_genes | Add seed genes from a DIAMOnD MODifieR_module |
| diamond_remove_seed_genes | Remove seed genes from a DIAMOnD MODifieR_module |
| diffcoex | DiffCoEx |
| diffcoex_split_module_by_color | Returns new DiffCoEx module objects by color |
| entrez_to_symbol | Convert the module genes in a MODifieR_input object from... |
| expression_matrix | Expression matrix |
| get_max_frequency | Get maximal number of MODifieR modules that share at least... |
| moda | MODA |
| moda_change_specific_threshold | Change |
| mod_mcode | MCODE |
| modulediscoverer | Module Discoverer |
| ppi_network | PPi network |
| probe_annotation | Probe annotation |
| recalculate_diff_genes | Recalculate DEGs |
| recalculate_expression | Recalculate collapsing probes to genes |
| S2B | S2B |
| symbol_to_entrez | Convert the module genes in a MODifieR_input object from... |
| wgcna | An implementation of WGCNA to correlate coexpression modules... |
| wgcna_adjust_significance | wgcna_adjust_significance |
| wgcna_get_all_module_genes | Generate a list of module colors with their respective genes. |
| wgcna_get_module_genes_by_sign | Split WGCNA module in module containing only positive or... |
| wgcna_set_module_size | Returns a wgcna module closest to 'size' |
| wgcna_split_module_by_color | Returns new WGCNA module objects by color |
